docs: update installation instructions in README

- Add note that npm installation is deprecated
- Add link to setup documentation
- Add WinGet installation option for Windows
- Update Homebrew to indicate MacOS/Linux support
- Mark recommended installation methods
- Improve formatting with proper indentation

.claude/commands/dedupe.md

@@ -1,5 +1,5 @@
 ---
-allowed-tools: Bash(gh issue view:*), Bash(gh search:*), Bash(gh issue list:*), Bash(gh api:*), Bash(gh issue comment:*)
+allowed-tools: Bash(gh issue view:*), Bash(gh search:*), Bash(gh issue list:*), Bash(./scripts/comment-on-duplicates.sh:*)
 description: Find duplicate GitHub issues
 ---
 
@@ -11,28 +11,13 @@ To do this, follow these steps precisely:
 2. Use an agent to view a Github issue, and ask the agent to return a summary of the issue
 3. Then, launch 5 parallel agents to search Github for duplicates of this issue, using diverse keywords and search approaches, using the summary from #1
 4. Next, feed the results from #1 and #2 into another agent, so that it can filter out false positives, that are likely not actually duplicates of the original issue. If there are no duplicates remaining, do not proceed.
-5. Finally, comment back on the issue with a list of up to three duplicate issues (or zero, if there are no likely duplicates)
+5. Finally, use the comment script to post duplicates:
+   ```
+   ./scripts/comment-on-duplicates.sh --base-issue <issue-number> --potential-duplicates <dup1> <dup2> <dup3>
+   ```
 
 Notes (be sure to tell this to your agents, too):
 
 - Use `gh` to interact with Github, rather than web fetch
-- Do not use other tools, beyond `gh` (eg. don't use other MCP servers, file edit, etc.)
+- Do not use other tools, beyond `gh` and the comment script (eg. don't use other MCP servers, file edit, etc.)
 - Make a todo list first
-- For your comment, follow the following format precisely (assuming for this example that you found 3 suspected duplicates):
-
----
-
-Found 3 possible duplicate issues:
-
-1. <link to issue>
-2. <link to issue>
-3. <link to issue>
-
-This issue will be automatically closed as a duplicate in 3 days.
-
-- If your issue is a duplicate, please close it and 👍 the existing issue instead
-- To prevent auto-closure, add a comment or 👎 this comment
-
-🤖 Generated with [Claude Code](https://claude.ai/code)
-
----

.github/workflows/claude-dedupe-issues.yml

@@ -23,13 +23,13 @@ jobs:
         uses: actions/checkout@v4
 
       - name: Run Claude Code slash command
-        uses: anthropics/claude-code-base-action@beta
+        uses: anthropics/claude-code-base-action@v1
+        env:
+          GH_TOKEN: ${{ secrets.GITHUB_TOKEN }}
         with:
           prompt: "/dedupe ${{ github.repository }}/issues/${{ github.event.issue.number || inputs.issue_number }}"
           anthropic_api_key: ${{ secrets.ANTHROPIC_API_KEY }}
           claude_args: "--model claude-sonnet-4-5-20250929"
-          claude_env: |
-            GH_TOKEN: ${{ secrets.GITHUB_TOKEN }}
 
       - name: Log duplicate comment event to Statsig
         if: always()

.github/workflows/claude-issue-triage.yml

@@ -95,13 +95,14 @@ jobs:
           EOF
 
       - name: Run Claude Code for Issue Triage
-        uses: anthropics/claude-code-base-action@beta
+        timeout-minutes: 5
+        uses: anthropics/claude-code-base-action@v1
+        env:
+          GH_TOKEN: ${{ secrets.GITHUB_TOKEN }}
         with:
           prompt_file: /tmp/claude-prompts/triage-prompt.txt
-          allowed_tools: "Bash(gh label list),mcp__github__get_issue,mcp__github__get_issue_comments,mcp__github__update_issue,mcp__github__search_issues,mcp__github__list_issues"
-          timeout_minutes: "5"
           anthropic_api_key: ${{ secrets.ANTHROPIC_API_KEY }}
-          mcp_config: /tmp/mcp-config/mcp-servers.json
-          claude_args: "--model claude-sonnet-4-5-20250929"
-          claude_env: |
-            GH_TOKEN: ${{ secrets.GITHUB_TOKEN }}
+          claude_args: |
+            --model claude-sonnet-4-5-20250929
+            --mcp-config /tmp/mcp-config/mcp-servers.json
+            --allowedTools "Bash(gh label list),mcp__github__get_issue,mcp__github__get_issue_comments,mcp__github__update_issue,mcp__github__search_issues,mcp__github__list_issues"

.github/workflows/claude.yml

@@ -31,7 +31,7 @@ jobs:
 
       - name: Run Claude Code
         id: claude
-        uses: anthropics/claude-code-action@beta
+        uses: anthropics/claude-code-action@v1
         with:
           anthropic_api_key: ${{ secrets.ANTHROPIC_API_KEY }}
           claude_args: "--model claude-sonnet-4-5-20250929"

.github/workflows/oncall-triage.yml

@@ -109,12 +109,13 @@ jobs:
           EOF
 
       - name: Run Claude Code for Oncall Triage
-        uses: anthropics/claude-code-base-action@beta
+        timeout-minutes: 10
+        uses: anthropics/claude-code-base-action@v1
+        env:
+          GH_TOKEN: ${{ secrets.GITHUB_TOKEN }}
         with:
           prompt_file: /tmp/claude-prompts/oncall-triage-prompt.txt
-          allowed_tools: "mcp__github__list_issues,mcp__github__get_issue,mcp__github__get_issue_comments,mcp__github__update_issue"
-          timeout_minutes: "10"
           anthropic_api_key: ${{ secrets.ANTHROPIC_API_KEY }}
-          mcp_config: /tmp/mcp-config/mcp-servers.json
-          claude_env: |
-            GH_TOKEN: ${{ secrets.GITHUB_TOKEN }}
+          claude_args: |
+            --mcp-config /tmp/mcp-config/mcp-servers.json
+            --allowedTools "mcp__github__list_issues,mcp__github__get_issue,mcp__github__get_issue_comments,mcp__github__update_issue"

CHANGELOG.md

@@ -1,8 +1,256 @@
 # Changelog
 
+## 2.1.5
+
+- Added `CLAUDE_CODE_TMPDIR` environment variable to override the temp directory used for internal temp files, useful for environments with custom temp directory requirements
+
+## 2.1.4
+
+- Added `CLAUDE_CODE_DISABLE_BACKGROUND_TASKS` environment variable to disable all background task functionality including auto-backgrounding and the Ctrl+B shortcut
+- Fixed "Help improve Claude" setting fetch to refresh OAuth and retry when it fails due to a stale OAuth token
+
+## 2.1.3
+
+- Merged slash commands and skills, simplifying the mental model with no change in behavior
+- Added release channel (`stable` or `latest`) toggle to `/config`
+- Added detection and warnings for unreachable permission rules, with warnings in `/doctor` and after saving rules that include the source of each rule and actionable fix guidance
+- Fixed plan files persisting across `/clear` commands, now ensuring a fresh plan file is used after clearing a conversation
+- Fixed false skill duplicate detection on filesystems with large inodes (e.g., ExFAT) by using 64-bit precision for inode values
+- Fixed mismatch between background task count in status bar and items shown in tasks dialog
+- Fixed sub-agents using the wrong model during conversation compaction
+- Fixed web search in sub-agents using incorrect model
+- Fixed trust dialog acceptance when running from the home directory not enabling trust-requiring features like hooks during the session
+- Improved terminal rendering stability by preventing uncontrolled writes from corrupting cursor state
+- Improved slash command suggestion readability by truncating long descriptions to 2 lines
+- Changed tool hook execution timeout from 60 seconds to 10 minutes
+- [VSCode] Added clickable destination selector for permission requests, allowing you to choose where settings are saved (this project, all projects, shared with team, or session only)
+
+## 2.1.2
+
+- Added source path metadata to images dragged onto the terminal, helping Claude understand where images originated
+- Added clickable hyperlinks for file paths in tool output in terminals that support OSC 8 (like iTerm)
+- Added support for Windows Package Manager (winget) installations with automatic detection and update instructions
+- Added Shift+Tab keyboard shortcut in plan mode to quickly select "auto-accept edits" option
+- Added `FORCE_AUTOUPDATE_PLUGINS` environment variable to allow plugin autoupdate even when the main auto-updater is disabled
+- Added `agent_type` to SessionStart hook input, populated if `--agent` is specified
+- Fixed a command injection vulnerability in bash command processing where malformed input could execute arbitrary commands
+- Fixed a memory leak where tree-sitter parse trees were not being freed, causing WASM memory to grow unbounded over long sessions
+- Fixed binary files (images, PDFs, etc.) being accidentally included in memory when using `@include` directives in CLAUDE.md files
+- Fixed updates incorrectly claiming another installation is in progress
+- Fixed crash when socket files exist in watched directories (defense-in-depth for EOPNOTSUPP errors)
+- Fixed remote session URL and teleport being broken when using `/tasks` command
+- Fixed MCP tool names being exposed in analytics events by sanitizing user-specific server configurations
+- Improved Option-as-Meta hint on macOS to show terminal-specific instructions for native CSIu terminals like iTerm2, Kitty, and WezTerm
+- Improved error message when pasting images over SSH to suggest using `scp` instead of the unhelpful clipboard shortcut hint
+- Improved permission explainer to not flag routine dev workflows (git fetch/rebase, npm install, tests, PRs) as medium risk
+- Changed large bash command outputs to be saved to disk instead of truncated, allowing Claude to read the full content
+- Changed large tool outputs to be persisted to disk instead of truncated, providing full output access via file references
+- Changed `/plugins` installed tab to unify plugins and MCPs with scope-based grouping
+- Deprecated Windows managed settings path `C:\ProgramData\ClaudeCode\managed-settings.json` - administrators should migrate to `C:\Program Files\ClaudeCode\managed-settings.json`
+- [SDK] Changed minimum zod peer dependency to ^4.0.0
+- [VSCode] Fixed usage display not updating after manual compact
+
+## 2.1.0
+
+- Added automatic skill hot-reload - skills created or modified in `~/.claude/skills` or `.claude/skills` are now immediately available without restarting the session
+- Added support for running skills and slash commands in a forked sub-agent context using `context: fork` in skill frontmatter
+- Added support for `agent` field in skills to specify agent type for execution
+- Added `language` setting to configure Claude's response language (e.g., language: "japanese")
+- Changed Shift+Enter to work out of the box in iTerm2, WezTerm, Ghostty, and Kitty without modifying terminal configs
+- Added `respectGitignore` support in `settings.json` for per-project control over @-mention file picker behavior
+- Added `IS_DEMO` environment variable to hide email and organization from the UI, useful for streaming or recording sessions
+- Fixed security issue where sensitive data (OAuth tokens, API keys, passwords) could be exposed in debug logs
+- Fixed files and skills not being properly discovered when resuming sessions with `-c` or `--resume`
+- Fixed pasted content being lost when replaying prompts from history using up arrow or Ctrl+R search
+- Fixed Esc key with queued prompts to only move them to input without canceling the running task
+- Reduced permission prompts for complex bash commands
+- Fixed command search to prioritize exact and prefix matches on command names over fuzzy matches in descriptions
+- Fixed PreToolUse hooks to allow `updatedInput` when returning `ask` permission decision, enabling hooks to act as middleware while still requesting user consent
+- Fixed plugin path resolution for file-based marketplace sources
+- Fixed LSP tool being incorrectly enabled when no LSP servers were configured
+- Fixed background tasks failing with "git repository not found" error for repositories with dots in their names
+- Fixed Claude in Chrome support for WSL environments
+- Fixed Windows native installer silently failing when executable creation fails
+- Improved CLI help output to display options and subcommands in alphabetical order for easier navigation
+- Added wildcard pattern matching for Bash tool permissions using `*` at any position in rules (e.g., `Bash(npm *)`, `Bash(* install)`, `Bash(git * main)`)
+- Added unified Ctrl+B backgrounding for both bash commands and agents - pressing Ctrl+B now backgrounds all running foreground tasks simultaneously
+- Added support for MCP `list_changed` notifications, allowing MCP servers to dynamically update their available tools, prompts, and resources without requiring reconnection
+- Added `/teleport` and `/remote-env` slash commands for claude.ai subscribers, allowing them to resume and configure remote sessions
+- Added support for disabling specific agents using `Task(AgentName)` syntax in settings.json permissions or the `--disallowedTools` CLI flag
+- Added hooks support to agent frontmatter, allowing agents to define PreToolUse, PostToolUse, and Stop hooks scoped to the agent's lifecycle
+- Added hooks support for skill and slash command frontmatter
+- Added new Vim motions: `;` and `,` to repeat f/F/t/T motions, `y` operator for yank with `yy`/`Y`, `p`/`P` for paste, text objects (`iw`, `aw`, `iW`, `aW`, `i"`, `a"`, `i'`, `a'`, `i(`, `a(`, `i[`, `a[`, `i{`, `a{`), `>>` and `<<` for indent/dedent, and `J` to join lines
+- Added `/plan` command shortcut to enable plan mode directly from the prompt
+- Added slash command autocomplete support when `/` appears anywhere in input, not just at the beginning
+- Added `--tools` flag support in interactive mode to restrict which built-in tools Claude can use during interactive sessions
+- Added `CLAUDE_CODE_FILE_READ_MAX_OUTPUT_TOKENS` environment variable to override the default file read token limit
+- Added support for `once: true` config for hooks
+- Added support for YAML-style lists in frontmatter `allowed-tools` field for cleaner skill declarations
+- Added support for prompt and agent hook types from plugins (previously only command hooks were supported)
+- Added Cmd+V support for image paste in iTerm2 (maps to Ctrl+V)
+- Added left/right arrow key navigation for cycling through tabs in dialogs
+- Added real-time thinking block display in Ctrl+O transcript mode
+- Added filepath to full output in background bash task details dialog
+- Added Skills as a separate category in the context visualization
+- Fixed OAuth token refresh not triggering when server reports token expired but local expiration check disagrees
+- Fixed session persistence getting stuck after transient server errors by recovering from 409 conflicts when the entry was actually stored
+- Fixed session resume failures caused by orphaned tool results during concurrent tool execution
+- Fixed a race condition where stale OAuth tokens could be read from the keychain cache during concurrent token refresh attempts
+- Fixed AWS Bedrock subagents not inheriting EU/APAC cross-region inference model configuration, causing 403 errors when IAM permissions are scoped to specific regions
+- Fixed API context overflow when background tasks produce large output by truncating to 30K chars with file path reference
+- Fixed a hang when reading FIFO files by skipping symlink resolution for special file types
+- Fixed terminal keyboard mode not being reset on exit in Ghostty, iTerm2, Kitty, and WezTerm
+- Fixed Alt+B and Alt+F (word navigation) not working in iTerm2, Ghostty, Kitty, and WezTerm
+- Fixed `${CLAUDE_PLUGIN_ROOT}` not being substituted in plugin `allowed-tools` frontmatter, which caused tools to incorrectly require approval
+- Fixed files created by the Write tool using hardcoded 0o600 permissions instead of respecting the system umask
+- Fixed commands with `$()` command substitution failing with parse errors
+- Fixed multi-line bash commands with backslash continuations being incorrectly split and flagged for permissions
+- Fixed bash command prefix extraction to correctly identify subcommands after global options (e.g., `git -C /path log` now correctly matches `Bash(git log:*)` rules)
+- Fixed slash commands passed as CLI arguments (e.g., `claude /context`) not being executed properly
+- Fixed pressing Enter after Tab-completing a slash command selecting a different command instead of submitting the completed one
+- Fixed slash command argument hint flickering and inconsistent display when typing commands with arguments
+- Fixed Claude sometimes redundantly invoking the Skill tool when running slash commands directly
+- Fixed skill token estimates in `/context` to accurately reflect frontmatter-only loading
+- Fixed subagents sometimes not inheriting the parent's model by default
+- Fixed model picker showing incorrect selection for Bedrock/Vertex users using `--model haiku`
+- Fixed duplicate Bash commands appearing in permission request option labels
+- Fixed noisy output when background tasks complete - now shows clean completion message instead of raw output
+- Fixed background task completion notifications to appear proactively with bullet point
+- Fixed forked slash commands showing "AbortError" instead of "Interrupted" message when cancelled
+- Fixed cursor disappearing after dismissing permission dialogs
+- Fixed `/hooks` menu selecting wrong hook type when scrolling to a different option
+- Fixed images in queued prompts showing as "[object Object]" when pressing Esc to cancel
+- Fixed images being silently dropped when queueing messages while backgrounding a task
+- Fixed large pasted images failing with "Image was too large" error
+- Fixed extra blank lines in multiline prompts containing CJK characters (Japanese, Chinese, Korean)
+- Fixed ultrathink keyword highlighting being applied to wrong characters when user prompt text wraps to multiple lines
+- Fixed collapsed "Reading X files…" indicator incorrectly switching to past tense when thinking blocks appear mid-stream
+- Fixed Bash read commands (like `ls` and `cat`) not being counted in collapsed read/search groups, causing groups to incorrectly show "Read 0 files"
+- Fixed spinner token counter to properly accumulate tokens from subagents during execution
+- Fixed memory leak in git diff parsing where sliced strings retained large parent strings
+- Fixed race condition where LSP tool could return "no server available" during startup
+- Fixed feedback submission hanging indefinitely when network requests timeout
+- Fixed search mode in plugin discovery and log selector views exiting when pressing up arrow
+- Fixed hook success message showing trailing colon when hook has no output
+- Multiple optimizations to improve startup performance
+- Improved terminal rendering performance when using native installer or Bun, especially for text with emoji, ANSI codes, and Unicode characters
+- Improved performance when reading Jupyter notebooks with many cells
+- Improved reliability for piped input like `cat refactor.md | claude`
+- Improved reliability for AskQuestion tool
+- Improved sed in-place edit commands to render as file edits with diff preview
+- Improved Claude to automatically continue when response is cut off due to output token limit, instead of showing an error message
+- Improved compaction reliability
+- Improved subagents (Task tool) to continue working after permission denial, allowing them to try alternative approaches
+- Improved skills to show progress while executing, displaying tool uses as they happen
+- Improved skills from `/skills/` directories to be visible in the slash command menu by default (opt-out with `user-invocable: false` in frontmatter)
+- Improved skill suggestions to prioritize recently and frequently used skills
+- Improved spinner feedback when waiting for the first response token
+- Improved token count display in spinner to include tokens from background agents
+- Improved incremental output for async agents to give the main thread more control and visibility
+- Improved permission prompt UX with Tab hint moved to footer, cleaner Yes/No input labels with contextual placeholders
+- Improved the Claude in Chrome notification with shortened help text and persistent display until dismissed
+- Improved macOS screenshot paste reliability with TIFF format support
+- Improved `/stats` output
+- Updated Atlassian MCP integration to use a more reliable default configuration (streamable HTTP)
+- Changed "Interrupted" message color from red to grey for a less alarming appearance
+- Removed permission prompt when entering plan mode - users can now enter plan mode without approval
+- Removed underline styling from image reference links
+- [SDK] Changed minimum zod peer dependency to ^4.0.0
+- [VSCode] Added currently selected model name to the context menu
+- [VSCode] Added descriptive labels on auto-accept permission button (e.g., "Yes, allow npm for this project" instead of "Yes, and don't ask again")
+- [VSCode] Fixed paragraph breaks not rendering in markdown content
+- [VSCode] Fixed scrolling in the extension inadvertently scrolling the parent iframe
+- [Windows] Fixed issue with improper rendering
+
+## 2.0.76
+
+- Fixed issue with macOS code-sign warning when using Claude in Chrome integration
+
+## 2.0.75
+
+- Minor bugfixes
+
+## 2.0.74
+
+- Added LSP (Language Server Protocol) tool for code intelligence features like go-to-definition, find references, and hover documentation
+- Added `/terminal-setup` support for Kitty, Alacritty, Zed, and Warp terminals
+- Added ctrl+t shortcut in `/theme` to toggle syntax highlighting on/off
+- Added syntax highlighting info to theme picker
+- Added guidance for macOS users when Alt shortcuts fail due to terminal configuration
+- Fixed skill `allowed-tools` not being applied to tools invoked by the skill
+- Fixed Opus 4.5 tip incorrectly showing when user was already using Opus
+- Fixed a potential crash when syntax highlighting isn't initialized correctly
+- Fixed visual bug in `/plugins discover` where list selection indicator showed while search box was focused
+- Fixed macOS keyboard shortcuts to display 'opt' instead of 'alt'
+- Improved `/context` command visualization with grouped skills and agents by source, slash commands, and sorted token count
+- [Windows] Fixed issue with improper rendering
+- [VSCode] Added gift tag pictogram for year-end promotion message
+
+## 2.0.73
+
+- Added clickable `[Image #N]` links that open attached images in the default viewer
+- Added alt-y yank-pop to cycle through kill ring history after ctrl-y yank
+- Added search filtering to the plugin discover screen (type to filter by name, description, or marketplace)
+- Added support for custom session IDs when forking sessions with `--session-id` combined with `--resume` or `--continue` and `--fork-session`
+- Fixed slow input history cycling and race condition that could overwrite text after message submission
+- Improved `/theme` command to open theme picker directly
+- Improved theme picker UI
+- Improved search UX across resume session, permissions, and plugins screens with a unified SearchBox component
+- [VSCode] Added tab icon badges showing pending permissions (blue) and unread completions (orange)
+
+## 2.0.72
+
+- Added Claude in Chrome (Beta) feature that works with the Chrome extension (https://claude.ai/chrome) to let you control your browser directly from Claude Code
+- Reduced terminal flickering
+- Added scannable QR code to mobile app tip for quick app downloads
+- Added loading indicator when resuming conversations for better feedback
+- Fixed `/context` command not respecting custom system prompts in non-interactive mode
+- Fixed order of consecutive Ctrl+K lines when pasting with Ctrl+Y
+- Improved @ mention file suggestion speed (~3x faster in git repositories)
+- Improved file suggestion performance in repos with `.ignore` or `.rgignore` files
+- Improved settings validation errors to be more prominent
+- Changed thinking toggle from Tab to Alt+T to avoid accidental triggers
+
+## 2.0.71
+
+- Added /config toggle to enable/disable prompt suggestions
+- Added `/settings` as an alias for the `/config` command
+- Fixed @ file reference suggestions incorrectly triggering when cursor is in the middle of a path
+- Fixed MCP servers from `.mcp.json` not loading when using `--dangerously-skip-permissions`
+- Fixed permission rules incorrectly rejecting valid bash commands containing shell glob patterns (e.g., `ls *.txt`, `for f in *.png`)
+- Bedrock: Environment variable `ANTHROPIC_BEDROCK_BASE_URL` is now respected for token counting and inference profile listing
+- New syntax highlighting engine for native build
+
+## 2.0.70
+
+- Added Enter key to accept and submit prompt suggestions immediately (tab still accepts for editing)
+- Added wildcard syntax `mcp__server__*` for MCP tool permissions to allow or deny all tools from a server
+- Added auto-update toggle for plugin marketplaces, allowing per-marketplace control over automatic updates
+- Added `current_usage` field to status line input, enabling accurate context window percentage calculations
+- Fixed input being cleared when processing queued commands while the user was typing
+- Fixed prompt suggestions replacing typed input when pressing Tab
+- Fixed diff view not updating when terminal is resized
+- Improved memory usage by 3x for large conversations
+- Improved resolution of stats screenshots copied to clipboard (Ctrl+S) for crisper images
+- Removed # shortcut for quick memory entry (tell Claude to edit your CLAUDE.md instead)
+- Fix thinking mode toggle in /config not persisting correctly
+- Improve UI for file creation permission dialog
+
+## 2.0.69
+
+- Minor bugfixes
+
+## 2.0.68
+
+- Fixed IME (Input Method Editor) support for languages like Chinese, Japanese, and Korean by correctly positioning the composition window at the cursor
+- Fixed a bug where disallowed MCP tools were visible to the model
+- Fixed an issue where steering messages could be lost while a subagent is working
+- Fixed Option+Arrow word navigation treating entire CJK (Chinese, Japanese, Korean) text sequences as a single word instead of navigating by word boundaries
+- Improved plan mode exit UX: show simplified yes/no dialog when exiting with empty or missing plan instead of throwing an error
+- Add support for enterprise managed settings. Contact your Anthropic account team to enable this feature.
+
 ## 2.0.67
 
-- Claude now suggests prompts to speed up your workflow: press Tab to accept or Enter to submit
 - Thinking mode is now enabled by default for Opus 4.5
 - Thinking mode configuration has moved to /config
 - Added search functionality to `/permissions` command with `/` keyboard shortcut for filtering rules by tool name

README.md

@@ -6,35 +6,42 @@
 
 Claude Code is an agentic coding tool that lives in your terminal, understands your codebase, and helps you code faster by executing routine tasks, explaining complex code, and handling git workflows -- all through natural language commands. Use it in your terminal, IDE, or tag @claude on Github.
 
-**Learn more in the [official documentation](https://docs.anthropic.com/en/docs/claude-code/overview)**.
+**Learn more in the [official documentation](https://code.claude.com/docs/en/overview)**.
 
 <img src="./demo.gif" />
 
 ## Get started
+> [!NOTE]
+> Installation via npm is deprecated. Use one of the recommended methods below.
+
+For more installation options, uninstall steps, and troubleshooting, see the [setup documentation](https://code.claude.com/docs/en/setup).
 
 1. Install Claude Code:
 
-**MacOS/Linux:**
-```bash
-curl -fsSL https://claude.ai/install.sh | bash
-```
+    **MacOS/Linux (Recommended):**
+    ```bash
+    curl -fsSL https://claude.ai/install.sh | bash
+    ```
 
-**Homebrew (MacOS):**
-```bash
-brew install --cask claude-code
-```
+    **Homebrew (MacOS/Linux):**
+    ```bash
+    brew install --cask claude-code
+    ```
 
-**Windows:**
-```powershell
-irm https://claude.ai/install.ps1 | iex
-```
+    **Windows (Recommended):**
+    ```powershell
+    irm https://claude.ai/install.ps1 | iex
+    ```
 
-**NPM:**
-```bash
-npm install -g @anthropic-ai/claude-code
-```
+    **WinGet (Windows):**
+    ```powershell
+    winget install Anthropic.ClaudeCode
+    ```
 
-NOTE: If installing with NPM, you also need to install [Node.js 18+](https://nodejs.org/en/download/)
+    **NPM (Deprecated):**
+    ```bash
+    npm install -g @anthropic-ai/claude-code
+    ```
 
 2. Navigate to your project directory and run `claude`.
 
@@ -56,7 +63,7 @@ When you use Claude Code, we collect feedback, which includes usage data (such a
 
 ### How we use your data
 
-See our [data usage policies](https://docs.anthropic.com/en/docs/claude-code/data-usage).
+See our [data usage policies](https://code.claude.com/docs/en/data-usage).
 
 ### Privacy safeguards
 

plugins/code-review/README.md

@@ -22,23 +22,29 @@ Performs automated code review on a pull request using multiple specialized agen
    - **Agent #4**: Analyze git blame/history for context-based issues
 5. Scores each issue 0-100 for confidence level
 6. Filters out issues below 80 confidence threshold
-7. Posts review comment with high-confidence issues only
+7. Outputs review (to terminal by default, or as PR comment with `--comment` flag)
 
 **Usage:**
 ```bash
-/code-review
+/code-review [--comment]
 ```
 
+**Options:**
+- `--comment`: Post the review as a comment on the pull request (default: outputs to terminal only)
+
 **Example workflow:**
 ```bash
-# On a PR branch, run:
+# On a PR branch, run locally (outputs to terminal):
 /code-review
 
+# Post review as PR comment:
+/code-review --comment
+
 # Claude will:
 # - Launch 4 review agents in parallel
 # - Score each issue for confidence
-# - Post comment with issues ≥80 confidence
-# - Skip posting if no high-confidence issues found
+# - Output issues ≥80 confidence (to terminal or PR depending on flag)
+# - Skip if no high-confidence issues found
 ```
 
 **Features:**
@@ -114,17 +120,23 @@ This plugin is included in the Claude Code repository. The command is automatica
 ### Standard PR review workflow:
 ```bash
 # Create PR with changes
+# Run local review (outputs to terminal)
 /code-review
 
 # Review the automated feedback
 # Make any necessary fixes
+
+# Optionally post as PR comment
+/code-review --comment
+
 # Merge when ready
 ```
 
 ### As part of CI/CD:
 ```bash
 # Trigger on PR creation or update
-# Automatically posts review comments
+# Use --comment flag to post review comments
+/code-review --comment
 # Skip if review already exists
 ```
 

plugins/code-review/commands/code-review.md

@@ -1,17 +1,21 @@
 ---
-allowed-tools: Bash(gh issue view:*), Bash(gh search:*), Bash(gh issue list:*), Bash(gh pr comment:*), Bash(gh pr diff:*), Bash(gh pr view:*), Bash(gh pr list:*)
+allowed-tools: Bash(gh issue view:*), Bash(gh search:*), Bash(gh issue list:*), Bash(gh pr comment:*), Bash(gh pr diff:*), Bash(gh pr view:*), Bash(gh pr list:*), mcp__github_inline_comment__create_inline_comment
 description: Code review a pull request
 ---
 
 Provide a code review for the given pull request.
 
+**Agent assumptions (applies to all agents and subagents):**
+- All tools are functional and will work without error. Do not test tools or make exploratory calls.
+- Only call a tool if it is required to complete the task. Every tool call should have a clear purpose.
+
 To do this, follow these steps precisely:
 
 1. Launch a haiku agent to check if any of the following are true:
    - The pull request is closed
    - The pull request is a draft
    - The pull request does not need code review (e.g. automated PR, trivial change that is obviously correct)
-   - You have already submitted a code review on this pull request
+   - Claude has already commented on this PR (check `gh pr view <PR> --comments` for comments left by claude)
 
    If any condition is true, stop and do not proceed.
 
@@ -34,15 +38,15 @@ Note: Still review Claude generated PR's.
    Agent 4: Opus bug agent (parallel subagent with agent 3)
    Look for problems that exist in the introduced code. This could be security issues, incorrect logic, etc. Only look for issues that fall within the changed code.
 
-   **CRITICAL: We only want HIGH SIGNAL issues.** This means:
-   - Objective bugs that will cause incorrect behavior at runtime
+   **CRITICAL: We only want HIGH SIGNAL issues.** Flag issues where:
+   - The code will fail to compile or parse (syntax errors, type errors, missing imports, unresolved references)
+   - The code will definitely produce wrong results regardless of inputs (clear logic errors)
    - Clear, unambiguous CLAUDE.md violations where you can quote the exact rule being broken
 
-   We do NOT want:
-   - Subjective concerns or "suggestions"
-   - Style preferences not explicitly required by CLAUDE.md
-   - Potential issues that "might" be problems
-   - Anything requiring interpretation or judgment calls
+   Do NOT flag:
+   - Code style or quality concerns
+   - Potential issues that depend on specific inputs or state
+   - Subjective suggestions or improvements
 
    If you are not certain an issue is real, do not flag it. False positives erode trust and waste reviewer time.
 
@@ -52,12 +56,17 @@ Note: Still review Claude generated PR's.
 
 6. Filter out any issues that were not validated in step 5. This step will give us our list of high signal issues for our review.
 
-7. Finally, comment on the pull request.
-   When writing your comment, follow these guidelines:
-   a. Keep your output brief
-   b. Avoid emojis
-   c. Link and cite relevant code, files, and URLs for each issue
-   d. When citing CLAUDE.md violations, you MUST quote the exact text from CLAUDE.md that is being violated (e.g., CLAUDE.md says: "Use snake_case for variable names")
+7. If issues were found, skip to step 8 to post inline comments directly.
+
+   If NO issues were found, post a summary comment using `gh pr comment` (if `--comment` argument is provided):
+   "No issues found. Checked for bugs and CLAUDE.md compliance."
+
+8. Post inline comments for each issue using `mcp__github_inline_comment__create_inline_comment`. For each comment:
+   - Provide a brief description of the issue
+   - For small, self-contained fixes, include a committable suggestion block
+   - For larger fixes (6+ lines, structural changes, or changes spanning multiple locations), describe the issue and suggested fix without a suggestion block
+
+   **IMPORTANT: Only post ONE comment per unique issue. Do not post duplicate comments.**
 
 Use this list when evaluating issues in Steps 4 and 5 (these are false positives, do NOT flag):
 
@@ -72,40 +81,18 @@ Notes:
 
 - Use gh CLI to interact with GitHub (e.g., fetch pull requests, create comments). Do not use web fetch.
 - Create a todo list before starting.
-- You must cite and link each issue (e.g., if referring to a CLAUDE.md, include a link to it).
-- For your final comment, follow the following format precisely (assuming for this example that you found 3 issues):
+- You must cite and link each issue in inline comments (e.g., if referring to a CLAUDE.md, include a link to it).
+- If no issues are found, post a comment with the following format:
 
 ---
 
 ## Code review
 
-Found 3 issues:
-
-1. <brief description of bug> (CLAUDE.md says: "<exact quote from CLAUDE.md>")
-
-<link to file and line with full sha1 + line range for context, eg. https://github.com/anthropics/claude-code/blob/1d54823877c4de72b2316a64032a54afc404e619/README.md#L13-L17>
-
-2. <brief description of bug> (some/other/CLAUDE.md says: "<exact quote from CLAUDE.md>")
-
-<link to file and line with full sha1 + line range for context>
-
-3. <brief description of bug> (bug due to <file and code snippet>)
-
-<link to file and line with full sha1 + line range for context>
-
----
-
-- Or, if you found no issues:
-
----
-
-## Auto code review
-
 No issues found. Checked for bugs and CLAUDE.md compliance.
 
 ---
 
-- When linking to code, follow the following format precisely, otherwise the Markdown preview won't render correctly: https://github.com/anthropics/claude-code/blob/c21d3c10bc8e898b7ac1a2d745bdc9bc4e423afe/package.json#L10-L15
+- When linking to code in inline comments, follow the following format precisely, otherwise the Markdown preview won't render correctly: https://github.com/anthropics/claude-code/blob/c21d3c10bc8e898b7ac1a2d745bdc9bc4e423afe/package.json#L10-L15
   - Requires full git sha
   - You must provide the full sha. Commands like `https://github.com/owner/repo/blob/$(git rev-parse HEAD)/foo/bar` will not work, since your comment will be directly rendered in Markdown.
   - Repo name must match the repo you're code reviewing

plugins/ralph-wiggum/commands/cancel-ralph.md

@@ -1,26 +1,18 @@
 ---
 description: "Cancel active Ralph Wiggum loop"
-allowed-tools: ["Bash"]
+allowed-tools: ["Bash(test -f .claude/ralph-loop.local.md:*)", "Bash(rm .claude/ralph-loop.local.md)", "Read(.claude/ralph-loop.local.md)"]
 hide-from-slash-command-tool: "true"
 ---
 
 # Cancel Ralph
 
-```!
-if [[ -f .claude/ralph-loop.local.md ]]; then
-  ITERATION=$(grep '^iteration:' .claude/ralph-loop.local.md | sed 's/iteration: *//')
-  echo "FOUND_LOOP=true"
-  echo "ITERATION=$ITERATION"
-else
-  echo "FOUND_LOOP=false"
-fi
-```
+To cancel the Ralph loop:
 
-Check the output above:
+1. Check if `.claude/ralph-loop.local.md` exists using Bash: `test -f .claude/ralph-loop.local.md && echo "EXISTS" || echo "NOT_FOUND"`
 
-1. **If FOUND_LOOP=false**:
-   - Say "No active Ralph loop found."
+2. **If NOT_FOUND**: Say "No active Ralph loop found."
 
-2. **If FOUND_LOOP=true**:
-   - Use Bash: `rm .claude/ralph-loop.local.md`
-   - Report: "Cancelled Ralph loop (was at iteration N)" where N is the ITERATION value from above.
+3. **If EXISTS**:
+   - Read `.claude/ralph-loop.local.md` to get the current iteration number from the `iteration:` field
+   - Remove the file using Bash: `rm .claude/ralph-loop.local.md`
+   - Report: "Cancelled Ralph loop (was at iteration N)" where N is the iteration value

plugins/ralph-wiggum/commands/ralph-loop.md

@@ -1,7 +1,7 @@
 ---
 description: "Start Ralph Wiggum loop in current session"
 argument-hint: "PROMPT [--max-iterations N] [--completion-promise TEXT]"
-allowed-tools: ["Bash(${CLAUDE_PLUGIN_ROOT}/scripts/setup-ralph-loop.sh)"]
+allowed-tools: ["Bash(${CLAUDE_PLUGIN_ROOT}/scripts/setup-ralph-loop.sh:*)"]
 hide-from-slash-command-tool: "true"
 ---
 
@@ -11,36 +11,6 @@ Execute the setup script to initialize the Ralph loop:
 
 ```!
 "${CLAUDE_PLUGIN_ROOT}/scripts/setup-ralph-loop.sh" $ARGUMENTS
-
-# Extract and display completion promise if set
-if [ -f .claude/ralph-loop.local.md ]; then
-  PROMISE=$(grep '^completion_promise:' .claude/ralph-loop.local.md | sed 's/completion_promise: *//' | sed 's/^"\(.*\)"$/\1/')
-  if [ -n "$PROMISE" ] && [ "$PROMISE" != "null" ]; then
-    echo ""
-    echo "═══════════════════════════════════════════════════════════"
-    echo "CRITICAL - Ralph Loop Completion Promise"
-    echo "═══════════════════════════════════════════════════════════"
-    echo ""
-    echo "To complete this loop, output this EXACT text:"
-    echo "  <promise>$PROMISE</promise>"
-    echo ""
-    echo "STRICT REQUIREMENTS (DO NOT VIOLATE):"
-    echo "  ✓ Use <promise> XML tags EXACTLY as shown above"
-    echo "  ✓ The statement MUST be completely and unequivocally TRUE"
-    echo "  ✓ Do NOT output false statements to exit the loop"
-    echo "  ✓ Do NOT lie even if you think you should exit"
-    echo ""
-    echo "IMPORTANT - Do not circumvent the loop:"
-    echo "  Even if you believe you're stuck, the task is impossible,"
-    echo "  or you've been running too long - you MUST NOT output a"
-    echo "  false promise statement. The loop is designed to continue"
-    echo "  until the promise is GENUINELY TRUE. Trust the process."
-    echo ""
-    echo "  If the loop should stop, the promise statement will become"
-    echo "  true naturally. Do not force it by lying."
-    echo "═══════════════════════════════════════════════════════════"
-  fi
-fi
 ```
 
 Please work on the task. When you try to exit, the Ralph loop will feed the SAME PROMPT back to you for the next iteration. You'll see your previous work in files and git history, allowing you to iterate and improve.

plugins/ralph-wiggum/scripts/setup-ralph-loop.sh

@@ -174,3 +174,30 @@ if [[ -n "$PROMPT" ]]; then
   echo ""
   echo "$PROMPT"
 fi
+
+# Display completion promise requirements if set
+if [[ "$COMPLETION_PROMISE" != "null" ]]; then
+  echo ""
+  echo "═══════════════════════════════════════════════════════════"
+  echo "CRITICAL - Ralph Loop Completion Promise"
+  echo "═══════════════════════════════════════════════════════════"
+  echo ""
+  echo "To complete this loop, output this EXACT text:"
+  echo "  <promise>$COMPLETION_PROMISE</promise>"
+  echo ""
+  echo "STRICT REQUIREMENTS (DO NOT VIOLATE):"
+  echo "  ✓ Use <promise> XML tags EXACTLY as shown above"
+  echo "  ✓ The statement MUST be completely and unequivocally TRUE"
+  echo "  ✓ Do NOT output false statements to exit the loop"
+  echo "  ✓ Do NOT lie even if you think you should exit"
+  echo ""
+  echo "IMPORTANT - Do not circumvent the loop:"
+  echo "  Even if you believe you're stuck, the task is impossible,"
+  echo "  or you've been running too long - you MUST NOT output a"
+  echo "  false promise statement. The loop is designed to continue"
+  echo "  until the promise is GENUINELY TRUE. Trust the process."
+  echo ""
+  echo "  If the loop should stop, the promise statement will become"
+  echo "  true naturally. Do not force it by lying."
+  echo "═══════════════════════════════════════════════════════════"
+fi

plugins/swarm-coordination/.claude-plugin/plugin.json

@@ -1,7 +0,0 @@
-{
-  "name": "swarm-coordination",
-  "version": "1.0.0",
-  "description": "Coordinates multi-agent swarms with status polling, file claiming, and checkpoint-based orchestration to prevent conflicts and enable proactive monitoring",
-  "author": "Anthropic",
-  "keywords": ["swarm", "multi-agent", "coordination", "orchestration", "parallel"]
-}

plugins/swarm-coordination/README.md

@@ -1,152 +0,0 @@
-# Swarm Coordination Plugin
-
-Coordinate multi-agent swarms with conflict prevention, status polling, and checkpoint-based orchestration.
-
-## The Problem
-
-When multiple agents work in parallel on the same codebase, they can:
-- Edit the same files simultaneously, creating conflicts
-- Make changes that overwrite each other
-- Get stuck in endless loops trying to "fix" each other's code
-- Waste effort with duplicate work
-
-## The Solution
-
-This plugin implements three complementary coordination patterns:
-
-### 1. Status Polling (Proactive Monitoring)
-
-The orchestrator periodically spawns lightweight status-checker agents to monitor swarm health:
-- Detect stuck or failed agents early
-- Identify file conflicts as they emerge
-- Enable dynamic load balancing
-- Provide real-time progress visibility
-
-### 2. File Claiming (Ownership Convention)
-
-Agents claim file ownership before editing:
-- Prevents multiple agents from editing the same file
-- Clear ownership registry in `.claude/file-claims.md`
-- Agents skip files claimed by others
-- Claims released after completion
-
-### 3. Checkpoint-Based Orchestration (Phased Execution)
-
-Separate swarm execution into controlled phases:
-1. **Planning** - Agents analyze and plan (read-only, parallel)
-2. **Review** - Detect conflicts before implementation
-3. **Resolution** - Resolve conflicts with user input
-4. **Implementation** - Execute with monitoring
-5. **Verification** - Validate results
-
-## Quick Start
-
-### Using the `/swarm` Command
-
-```
-/swarm Implement user authentication with JWT tokens and session management
-```
-
-The command will guide you through:
-1. Initializing coordination files
-2. Launching planning agents
-3. Reviewing and resolving conflicts
-4. Executing implementation with monitoring
-5. Verifying completion
-
-### Manual Coordination
-
-For custom workflows, use the individual components:
-
-1. Create coordination files:
-   - `.claude/swarm-status.json`
-   - `.claude/file-claims.md`
-   - `.claude/swarm-plans/`
-
-2. Include file claiming instructions in agent prompts
-
-3. Launch status-checker periodically during execution
-
-## Plugin Contents
-
-### Commands
-- `/swarm [task]` - Full orchestrated swarm workflow
-
-### Agents
-- `status-checker` - Monitors swarm health (haiku, fast)
-- `conflict-detector` - Analyzes plans for conflicts
-- `plan-reviewer` - Validates individual agent plans
-
-### Skills
-- `swarm-patterns` - Documentation and examples
-
-## Coordination Files
-
-### `.claude/swarm-status.json`
-```json
-{
-  "swarm_id": "feature-impl-001",
-  "task": "Implement new feature",
-  "phase": "implementing",
-  "agents": {
-    "agent-1": {"status": "working"},
-    "agent-2": {"status": "completed"}
-  }
-}
-```
-
-### `.claude/file-claims.md`
-```markdown
-| Agent ID | File Path | Claimed At | Status |
-|----------|-----------|------------|--------|
-| agent-1 | src/api/handler.ts | 2025-01-15T10:00:00Z | claimed |
-| agent-2 | src/db/schema.ts | 2025-01-15T10:00:00Z | released |
-```
-
-## Best Practices
-
-1. **Always use planning phase** - Never skip to implementation
-2. **Resolve all conflicts** - Don't proceed with overlapping claims
-3. **Poll regularly** - Every 30-60 seconds during execution
-4. **Use haiku for status checks** - Fast and cheap
-5. **Release claims promptly** - Don't hold after completion
-
-## When to Use
-
-Use this plugin when:
-- Multiple agents need to work on the same codebase
-- Tasks require parallel execution for speed
-- You've experienced agent conflicts before
-- You need visibility into swarm progress
-
-## When NOT to Use
-
-Skip this plugin when:
-- Single agent is sufficient
-- Agents work on completely separate codebases
-- Tasks are purely read-only (no file modifications)
-
-## Troubleshooting
-
-### Agents Still Conflict
-- Ensure all agents include file claiming instructions
-- Verify conflict detection ran before implementation
-- Check that claims registry is being read
-
-### Status Checker Shows Stuck Agents
-- Check agent logs for errors
-- Consider increasing timeout
-- May need to reassign work
-
-### Claims Not Releasing
-- Verify agent completion is being tracked
-- Manually update claims if needed
-- Check for orchestrator errors
-
-## Learn More
-
-See the `swarm-patterns` skill for detailed documentation:
-- `references/status-polling.md` - Polling patterns
-- `references/file-claiming.md` - Claiming conventions
-- `references/checkpoint-flow.md` - Phased orchestration
-- `examples/simple-swarm.md` - Complete example

plugins/swarm-coordination/agents/conflict-detector.md

@@ -1,108 +0,0 @@
----
-name: conflict-detector
-description: Analyzes agent implementation plans to detect file conflicts before execution. Used in checkpoint-based orchestration to review plans and identify overlapping file edits.
-tools: Read, Glob, Grep
-model: sonnet
-color: orange
----
-
-You are an expert conflict analyst specializing in detecting potential file conflicts between multiple agent implementation plans.
-
-## Core Mission
-
-Review planned changes from multiple agents and identify any files that would be modified by more than one agent, enabling conflict resolution BEFORE implementation begins.
-
-## Analysis Process
-
-**1. Gather Plans**
-- Read `.claude/swarm-plans/` directory for all agent plans
-- Parse each plan to extract:
-  - Files to be created
-  - Files to be modified
-  - Files to be deleted
-  - Dependencies on other files
-
-**2. Build File Map**
-Create a mapping of file → agents planning to touch it:
-```
-src/api/handler.ts → [agent-1 (modify), agent-3 (modify)]
-src/utils/helper.ts → [agent-2 (create)]
-src/types/index.ts → [agent-1 (modify), agent-2 (modify), agent-3 (modify)]
-```
-
-**3. Identify Conflicts**
-- **Direct conflicts**: Multiple agents modifying same file
-- **Creation conflicts**: Multiple agents creating same file
-- **Dependency conflicts**: Agent B depends on file Agent A will modify
-- **Deletion conflicts**: Agent modifying file another will delete
-
-**4. Assess Severity**
-- **Critical**: Same function/class being modified differently
-- **Major**: Same file, different sections
-- **Minor**: Related files that might have import issues
-- **Info**: Same directory but different files
-
-**5. Generate Resolution Strategies**
-For each conflict, suggest:
-- Which agent should handle the file
-- How to sequence the work
-- Alternative approaches to avoid conflict
-
-## Output Format
-
-```markdown
-## Conflict Analysis Report
-
-### Summary
-- Total files planned for modification: [N]
-- Files with conflicts: [N]
-- Critical conflicts: [N]
-- Agents analyzed: [list]
-
-### Critical Conflicts (Must Resolve)
-
-#### Conflict 1: `src/api/handler.ts`
-**Agents involved**: agent-1, agent-3
-**Nature**: Both agents plan to modify the `handleRequest` function
-**Agent-1 plan**: Add authentication check
-**Agent-3 plan**: Add rate limiting wrapper
-
-**Resolution options**:
-1. **Sequence**: Have agent-1 complete first, then agent-3 builds on top
-2. **Merge**: Combine both changes into a single agent's scope
-3. **Split**: Agent-1 handles auth in middleware, agent-3 handles rate limiting in handler
-
-**Recommended**: Option 1 - Sequential execution
-
----
-
-### Major Conflicts (Should Review)
-[Similar format]
-
-### Minor Conflicts (Informational)
-[Similar format]
-
-### Conflict-Free Assignments
-These agents can proceed in parallel without issues:
-- agent-2: Only touches `src/utils/` (no overlap)
-- agent-4: Only touches `tests/` (no overlap)
-
-### Recommended Execution Order
-1. **Parallel batch 1**: agent-2, agent-4 (no conflicts)
-2. **Sequential**: agent-1 (depends on nothing, blocks agent-3)
-3. **Sequential**: agent-3 (depends on agent-1 completion)
-```
-
-## Quality Standards
-
-- Every conflict includes specific file paths
-- Resolution options are actionable
-- Recommended execution order is provided
-- False positives minimized (understand semantic conflicts, not just file overlap)
-
-## Edge Cases
-
-- **No plans found**: Report "No agent plans to analyze"
-- **No conflicts**: Report "All agents have non-overlapping scopes"
-- **Circular dependencies**: Flag as critical, require manual resolution
-- **Unclear plan scope**: Flag for clarification rather than assuming

plugins/swarm-coordination/agents/plan-reviewer.md

@@ -1,124 +0,0 @@
----
-name: plan-reviewer
-description: Reviews an individual agent's implementation plan for completeness, feasibility, and clarity. Used during the planning phase of checkpoint-based orchestration.
-tools: Read, Glob, Grep
-model: sonnet
-color: blue
----
-
-You are an expert plan reviewer specializing in validating implementation plans for autonomous agents.
-
-## Core Mission
-
-Review an agent's implementation plan to ensure it is complete, feasible, and specific enough to execute without ambiguity. Flag issues before the agent begins implementation.
-
-## Review Process
-
-**1. Parse Plan Structure**
-- Verify plan follows expected format
-- Check all required sections are present
-- Ensure file lists are explicit
-
-**2. Validate Scope**
-- Files to modify are clearly listed with full paths
-- Changes are described with enough detail
-- No vague statements like "update as needed"
-
-**3. Check Feasibility**
-- Files mentioned actually exist (or creation is explicit)
-- Dependencies are identified
-- No impossible or conflicting requirements
-
-**4. Assess Risk**
-- High-risk changes flagged (deleting files, changing interfaces)
-- Breaking changes identified
-- Rollback complexity noted
-
-**5. Verify Completeness**
-- All aspects of the task are addressed
-- Edge cases considered
-- Testing approach included (if applicable)
-
-## Plan Format Expected
-
-```markdown
-## Agent Plan: [agent-id]
-
-### Task Summary
-[What this agent will accomplish]
-
-### Files to Modify
-- `path/to/file1.ts`: [Description of changes]
-- `path/to/file2.ts`: [Description of changes]
-
-### Files to Create
-- `path/to/new-file.ts`: [Purpose and contents summary]
-
-### Files to Delete
-- `path/to/old-file.ts`: [Reason for deletion]
-
-### Dependencies
-- Requires: [files/features this depends on]
-- Blocks: [what cannot proceed until this completes]
-
-### Implementation Steps
-1. [Step 1]
-2. [Step 2]
-...
-
-### Risks and Mitigations
-- [Risk]: [Mitigation]
-```
-
-## Output Format
-
-```markdown
-## Plan Review: [agent-id]
-
-### Overall Assessment: [APPROVED|NEEDS_REVISION|REJECTED]
-
-### Checklist
-- [x] Clear task summary
-- [x] Explicit file list
-- [ ] Missing: dependency identification
-- [x] Feasible changes
-- [ ] Issue: vague step description
-
-### Issues Found
-
-#### Critical (Must Fix)
-1. **Vague file reference**: "update the handler" - which handler? Specify full path.
-2. **Missing dependency**: Plan modifies `types/index.ts` but doesn't list it
-
-#### Warnings (Should Address)
-1. **High-risk change**: Deleting `utils/legacy.ts` - confirm no other imports
-2. **Missing test plan**: No testing approach specified
-
-#### Suggestions (Optional)
-1. Consider breaking step 3 into smaller sub-steps
-2. Add rollback strategy for interface changes
-
-### Required Changes for Approval
-1. Specify exact file path for "handler"
-2. Add `types/index.ts` to files list
-3. Confirm deletion safety for legacy file
-
-### Approved File Claims
-If approved, agent may claim:
-- `src/api/auth.ts`
-- `src/middleware/validate.ts`
-```
-
-## Quality Standards
-
-- Review is thorough but fast (plans should be concise)
-- Issues are specific with suggested fixes
-- Approval status is clear and actionable
-- File claims are explicit for coordination
-
-## Edge Cases
-
-- **Empty plan**: Reject with "No plan content found"
-- **Overly broad scope**: Flag and suggest breaking into multiple agents
-- **Conflicts with other plans**: Defer to conflict-detector agent
-- **Already-implemented changes**: Flag as potential duplicate work

plugins/swarm-coordination/agents/status-checker.md

@@ -1,81 +0,0 @@
----
-name: status-checker
-description: Monitors swarm progress by reading status files, identifying conflicts, stuck agents, and overall health. Launch periodically during swarm execution to enable proactive coordination.
-tools: Read, Glob, Grep
-model: haiku
-color: cyan
----
-
-You are an expert swarm health monitor specializing in tracking multi-agent coordination status.
-
-## Core Mission
-
-Quickly assess swarm health by reading status files and identifying any issues that require orchestrator intervention.
-
-## Status Check Process
-
-**1. Read Swarm Status**
-- Read `.claude/swarm-status.json` for current agent states
-- Check timestamps to identify stale/stuck agents (>2 minutes without update)
-- Note which agents are active, completed, or failed
-
-**2. Check File Claims**
-- Read `.claude/file-claims.md` for current file ownership
-- Identify any conflicts (multiple agents claiming same file)
-- Note stale claims (agent completed but claim not released)
-
-**3. Analyze Progress**
-- Calculate overall completion percentage
-- Identify bottlenecks (agents waiting on others)
-- Detect circular dependencies or deadlocks
-
-**4. Identify Issues**
-- **Conflicts**: Multiple agents editing same files
-- **Stuck Agents**: No progress for >2 minutes
-- **Failed Agents**: Agents that reported errors
-- **Stale Claims**: File claims from completed agents
-
-## Output Format
-
-Return a JSON status report:
-
-```json
-{
-  "timestamp": "[current time]",
-  "overall_health": "healthy|warning|critical",
-  "completion_percentage": [0-100],
-  "active_agents": [
-    {"id": "agent-1", "task": "description", "status": "working", "last_update": "timestamp"}
-  ],
-  "completed_agents": ["agent-2", "agent-3"],
-  "issues": {
-    "conflicts": [
-      {"file": "path/to/file.ts", "agents": ["agent-1", "agent-4"], "severity": "critical"}
-    ],
-    "stuck_agents": [
-      {"id": "agent-5", "last_update": "timestamp", "duration_seconds": 180}
-    ],
-    "stale_claims": [
-      {"file": "path/to/file.ts", "agent": "agent-2", "reason": "agent completed"}
-    ]
-  },
-  "recommendations": [
-    {"action": "pause", "target": "agent-4", "reason": "file conflict with agent-1"},
-    {"action": "reassign", "target": "agent-5", "reason": "stuck for 3 minutes"}
-  ]
-}
-```
-
-## Quality Standards
-
-- Fast execution (this runs frequently, keep it lightweight)
-- Accurate conflict detection (no false positives)
-- Clear, actionable recommendations
-- Machine-readable JSON output for orchestrator parsing
-
-## Edge Cases
-
-- **No status file exists**: Report as "no swarm active"
-- **Empty status file**: Report as "swarm initializing"
-- **All agents completed**: Report healthy with 100% completion
-- **Multiple critical issues**: Prioritize by severity (conflicts > stuck > stale)

plugins/swarm-coordination/commands/swarm.md

@@ -1,287 +0,0 @@
----
-description: Coordinate multi-agent swarm with conflict prevention, status polling, and checkpoint-based orchestration
-argument-hint: [task description]
----
-
-# Coordinated Swarm Orchestration
-
-You are orchestrating a multi-agent swarm to complete a complex task. Follow this checkpoint-based workflow to prevent conflicts and enable proactive monitoring.
-
-## Task Description
-$ARGUMENTS
-
----
-
-## Phase 1: Initialization
-
-**Goal**: Set up swarm coordination infrastructure
-
-**Actions**:
-1. Create coordination files:
-   - `.claude/swarm-status.json` - Agent status tracking
-   - `.claude/file-claims.md` - File ownership registry
-   - `.claude/swarm-plans/` - Directory for agent plans
-
-2. Initialize status file:
-```json
-{
-  "swarm_id": "[generated-id]",
-  "task": "[task description]",
-  "started": "[timestamp]",
-  "phase": "planning",
-  "agents": {}
-}
-```
-
-3. Initialize file claims:
-```markdown
-# File Claims Registry
-
-| Agent ID | File Path | Claimed At | Status |
-|----------|-----------|------------|--------|
-```
-
-4. Create todo list tracking all phases
-
----
-
-## Phase 2: Planning (Parallel, Read-Only)
-
-**Goal**: Have multiple agents analyze the codebase and create implementation plans WITHOUT making changes
-
-**Actions**:
-1. Launch 2-4 planning agents in parallel, depending on task complexity. Each agent should:
-   - Analyze a different aspect of the task
-   - Create a detailed implementation plan
-   - List ALL files they intend to modify/create/delete
-   - Identify dependencies on other files or agents
-   - **CRITICAL**: Agents must NOT edit any files - planning only
-
-2. Each agent writes their plan to `.claude/swarm-plans/[agent-id].md`:
-```markdown
-## Agent Plan: [agent-id]
-
-### Task Summary
-[What this agent will accomplish]
-
-### Files to Modify
-- `path/to/file.ts`: [Description of changes]
-
-### Files to Create
-- `path/to/new-file.ts`: [Purpose]
-
-### Dependencies
-- Requires: [what this depends on]
-- Blocks: [what depends on this]
-
-### Implementation Steps
-1. [Step 1]
-2. [Step 2]
-```
-
-3. Update swarm status as agents complete:
-```json
-{
-  "agents": {
-    "agent-1": {"status": "plan_complete", "plan_file": ".claude/swarm-plans/agent-1.md"}
-  }
-}
-```
-
----
-
-## Phase 3: Conflict Detection
-
-**Goal**: Review all plans and identify conflicts before implementation
-
-**Actions**:
-1. Wait for ALL planning agents to complete
-2. Read all plans from `.claude/swarm-plans/`
-3. Launch the **conflict-detector** agent to analyze all plans
-4. Review the conflict report
-
-**If conflicts found**:
-- Present conflict report to user
-- Ask for resolution preference:
-  - **Sequence**: Execute conflicting agents one at a time
-  - **Reassign**: Move conflicting files to single agent
-  - **Manual**: User provides custom resolution
-- Update plans based on resolution
-- Re-run conflict detection to confirm resolution
-
-**If no conflicts**:
-- Proceed to Phase 4
-
----
-
-## Phase 4: File Claiming
-
-**Goal**: Register file ownership before implementation begins
-
-**Actions**:
-1. For each approved plan, register file claims in `.claude/file-claims.md`:
-```markdown
-| agent-1 | src/api/handler.ts | 2025-01-15T10:30:00Z | claimed |
-| agent-1 | src/utils/auth.ts | 2025-01-15T10:30:00Z | claimed |
-| agent-2 | src/db/queries.ts | 2025-01-15T10:30:00Z | claimed |
-```
-
-2. Determine execution order based on conflict analysis:
-   - **Parallel batch 1**: Agents with no conflicts or dependencies
-   - **Sequential queue**: Agents that must wait for others
-
-3. Update swarm status:
-```json
-{
-  "phase": "implementing",
-  "execution_order": [
-    {"batch": 1, "agents": ["agent-1", "agent-2"], "parallel": true},
-    {"batch": 2, "agents": ["agent-3"], "parallel": false, "waits_for": ["agent-1"]}
-  ]
-}
-```
-
----
-
-## Phase 5: Implementation with Monitoring
-
-**Goal**: Execute implementation with proactive status monitoring
-
-**Actions**:
-1. Launch first batch of implementation agents
-
-2. **Status Polling Loop** (every 30-60 seconds during execution):
-   - Launch a **status-checker** agent (haiku model for speed)
-   - Review status report
-   - If issues detected:
-     - **Conflict**: Pause later agent, let first complete
-     - **Stuck agent**: Check logs, consider reassignment
-     - **Failed agent**: Report to user, decide whether to retry or skip
-
-3. As each agent completes:
-   - Update swarm status: `"status": "completed"`
-   - Release file claims in `.claude/file-claims.md`: change status to `released`
-   - Launch next queued agents that were waiting
-
-4. **Agent Instructions** (include in each implementation agent's prompt):
-```markdown
-## Coordination Requirements
-
-Before editing any file:
-1. Read `.claude/file-claims.md`
-2. Verify the file is claimed by YOU (your agent ID)
-3. If claimed by another agent, SKIP and note in your results
-4. If not claimed, DO NOT edit - report the missing claim
-
-After completing work:
-1. Update your status in swarm communication
-2. Report files modified for claim release
-
-If you encounter a conflict:
-1. STOP editing the conflicted file
-2. Report the conflict immediately
-3. Wait for orchestrator resolution
-```
-
----
-
-## Phase 6: Verification
-
-**Goal**: Verify swarm completed successfully
-
-**Actions**:
-1. Check all agents completed:
-   - Read final swarm status
-   - Verify all planned files were modified
-   - Check for any orphaned claims
-
-2. Run integration checks:
-   - Build/compile if applicable
-   - Run tests if applicable
-   - Check for import/type errors
-
-3. Clean up coordination files:
-   - Archive swarm status to `.claude/swarm-history/`
-   - Clear file claims
-   - Remove plan files
-
----
-
-## Phase 7: Summary
-
-**Goal**: Report swarm execution results
-
-**Actions**:
-1. Summarize:
-   - Total agents launched
-   - Files modified/created/deleted
-   - Conflicts detected and resolved
-   - Issues encountered
-   - Total execution time
-
-2. Present to user:
-   - What was accomplished
-   - Any items requiring follow-up
-   - Suggested next steps
-
----
-
-## Error Handling
-
-**Agent Failure**:
-1. Log failure in swarm status
-2. Release failed agent's file claims
-3. Ask user: retry, skip, or abort swarm
-
-**Unresolvable Conflict**:
-1. Pause all conflicting agents
-2. Present options to user
-3. Wait for manual resolution
-
-**Stuck Swarm**:
-1. If no progress for 5+ minutes, alert user
-2. Provide diagnostic information
-3. Offer to abort and roll back
-
----
-
-## File Claim Convention (For All Agents)
-
-Include this instruction block in every implementation agent's system prompt:
-
-```markdown
-## File Claiming Protocol
-
-You are part of a coordinated swarm. Follow these rules strictly:
-
-1. **Before ANY file edit**:
-   - Read `.claude/file-claims.md`
-   - Find your agent ID in the registry
-   - Only edit files claimed by YOUR agent ID
-
-2. **If file is claimed by another agent**:
-   - DO NOT edit the file
-   - Note in your results: "Skipped [file] - claimed by [other-agent]"
-   - Continue with other work
-
-3. **If file is not in claims registry**:
-   - DO NOT edit the file
-   - Report: "Cannot edit [file] - not in approved claims"
-   - This indicates a planning oversight
-
-4. **Update your progress**:
-   - After each significant step, your status will be tracked
-   - If you encounter issues, report them clearly
-```
-
----
-
-## Status Polling Schedule
-
-During Phase 5, launch status-checker agent:
-- After initial batch launch: wait 30 seconds, then check
-- During active execution: check every 45-60 seconds
-- After agent completion: immediate check to launch next batch
-- On any reported issue: immediate check
-
-Use **haiku model** for status-checker to minimize latency and cost.

plugins/swarm-coordination/skills/swarm-patterns/SKILL.md

@@ -1,80 +0,0 @@
-# Swarm Coordination Patterns
-
-Comprehensive guidance for coordinating multi-agent swarms to prevent conflicts and enable proactive monitoring.
-
-## When to Activate
-
-Activate this skill when:
-- Orchestrating multiple agents working on the same codebase
-- Implementing features that require parallel agent execution
-- Designing workflows where agents might edit overlapping files
-- Debugging swarm coordination issues
-
-## Core Concepts
-
-### The Problem with Uncoordinated Swarms
-
-When multiple agents work in parallel without coordination:
-1. **File Conflicts**: Multiple agents edit the same file simultaneously
-2. **Merge Conflicts**: Changes overwrite each other
-3. **Endless Loops**: Agents "fix" each other's code in circles
-4. **Wasted Work**: Duplicate effort on same files
-
-### Three-Pillar Solution
-
-This skill teaches three complementary patterns:
-
-1. **Status Polling (Fix 1)**: Orchestrator proactively monitors agent progress
-2. **File Claiming (Fix 2)**: Agents claim ownership before editing
-3. **Checkpoint Orchestration (Fix 5)**: Plan first, detect conflicts, then implement
-
-## Key Files
-
-### Coordination Files
-- `.claude/swarm-status.json` - Central status tracking
-- `.claude/file-claims.md` - File ownership registry
-- `.claude/swarm-plans/` - Agent implementation plans
-
-### Status File Format
-```json
-{
-  "swarm_id": "swarm-20250115-abc123",
-  "task": "Implement user authentication",
-  "started": "2025-01-15T10:00:00Z",
-  "phase": "implementing",
-  "agents": {
-    "auth-impl": {"status": "working", "last_update": "2025-01-15T10:05:00Z"},
-    "db-schema": {"status": "completed", "last_update": "2025-01-15T10:03:00Z"}
-  },
-  "execution_order": [
-    {"batch": 1, "agents": ["db-schema"], "parallel": false},
-    {"batch": 2, "agents": ["auth-impl", "api-routes"], "parallel": true}
-  ]
-}
-```
-
-### File Claims Format
-```markdown
-# File Claims Registry
-
-| Agent ID | File Path | Claimed At | Status |
-|----------|-----------|------------|--------|
-| auth-impl | src/auth/handler.ts | 2025-01-15T10:00:00Z | claimed |
-| auth-impl | src/auth/types.ts | 2025-01-15T10:00:00Z | claimed |
-| db-schema | src/db/schema.ts | 2025-01-15T10:00:00Z | released |
-```
-
-## References
-
-- `references/status-polling.md` - Detailed polling patterns
-- `references/file-claiming.md` - File ownership conventions
-- `references/checkpoint-flow.md` - Phase-based orchestration
-- `examples/simple-swarm.md` - Basic two-agent swarm
-- `examples/complex-swarm.md` - Multi-phase feature implementation
-
-## Quick Start
-
-1. Use `/swarm [task]` command for full orchestrated flow
-2. For manual coordination, create the three coordination files
-3. Include file claiming instructions in all implementation agents
-4. Launch status-checker every 30-60 seconds during execution

plugins/swarm-coordination/skills/swarm-patterns/examples/simple-swarm.md

@@ -1,260 +0,0 @@
-# Simple Swarm Example
-
-A two-agent swarm implementing a feature with coordinated file claiming.
-
-## Scenario
-
-Task: Add user authentication to an Express API
-
-## Initial Setup
-
-### Swarm Status File
-`.claude/swarm-status.json`:
-```json
-{
-  "swarm_id": "auth-feature-001",
-  "task": "Add user authentication",
-  "started": "2025-01-15T10:00:00Z",
-  "phase": "initialized",
-  "agents": {}
-}
-```
-
-### File Claims Registry
-`.claude/file-claims.md`:
-```markdown
-# File Claims Registry
-
-Last updated: 2025-01-15T10:00:00Z
-Swarm ID: auth-feature-001
-
-| Agent ID | File Path | Claimed At | Status |
-|----------|-----------|------------|--------|
-```
-
-## Phase 1: Planning
-
-Launch two planning agents:
-
-**Agent 1 Prompt**:
-```
-Analyze the codebase and create an implementation plan for:
-Adding JWT token validation middleware
-
-You are in PLANNING MODE - DO NOT modify any files.
-Output a structured plan with all files you need to modify.
-```
-
-**Agent 2 Prompt**:
-```
-Analyze the codebase and create an implementation plan for:
-Adding user login/logout API endpoints
-
-You are in PLANNING MODE - DO NOT modify any files.
-Output a structured plan with all files you need to modify.
-```
-
-### Agent 1 Plan Output
-`.claude/swarm-plans/jwt-middleware.md`:
-```markdown
-## Agent Plan: jwt-middleware
-
-### Task Summary
-Implement JWT token validation middleware for protected routes.
-
-### Files to Modify
-- `src/middleware/index.ts`: Export new auth middleware
-
-### Files to Create
-- `src/middleware/auth.ts`: JWT validation middleware
-- `src/types/auth.ts`: Token payload types
-
-### Dependencies
-- Requires: None
-- Blocks: Protected routes need this middleware
-
-### Implementation Steps
-1. Create auth types
-2. Implement JWT validation middleware
-3. Export from middleware index
-```
-
-### Agent 2 Plan Output
-`.claude/swarm-plans/auth-endpoints.md`:
-```markdown
-## Agent Plan: auth-endpoints
-
-### Task Summary
-Implement login and logout API endpoints.
-
-### Files to Modify
-- `src/routes/index.ts`: Add auth routes
-- `src/middleware/index.ts`: Import auth utilities
-
-### Files to Create
-- `src/routes/auth.ts`: Login/logout endpoints
-- `src/services/auth.ts`: Authentication service
-
-### Dependencies
-- Requires: JWT middleware for logout validation
-- Blocks: None
-
-### Implementation Steps
-1. Create auth service
-2. Implement auth routes
-3. Update routes index
-4. Update middleware index
-```
-
-## Phase 2: Conflict Detection
-
-Analyzing plans:
-
-```
-File: src/middleware/index.ts
-  - jwt-middleware: modify (export new middleware)
-  - auth-endpoints: modify (import auth utilities)
-  → CONFLICT DETECTED
-```
-
-### Conflict Report
-```markdown
-## Conflict Analysis
-
-### Conflicts Found: 1
-
-#### Conflict 1: src/middleware/index.ts
-Agents: jwt-middleware, auth-endpoints
-Nature: Both agents plan to modify this file
-- jwt-middleware: Add export for auth middleware
-- auth-endpoints: Import auth utilities
-
-**Resolution Options**:
-1. Sequential: jwt-middleware first, then auth-endpoints
-2. Merge: Have jwt-middleware handle all middleware/index.ts changes
-```
-
-## Phase 3: Resolution
-
-**Chosen Resolution**: Option 1 - Sequential execution
-
-Updated execution plan:
-- Batch 1: jwt-middleware (no dependencies)
-- Batch 2: auth-endpoints (after jwt-middleware completes)
-
-## Phase 4: File Claiming
-
-Updated `.claude/file-claims.md`:
-```markdown
-# File Claims Registry
-
-Last updated: 2025-01-15T10:05:00Z
-Swarm ID: auth-feature-001
-
-| Agent ID | File Path | Claimed At | Status |
-|----------|-----------|------------|--------|
-| jwt-middleware | src/middleware/auth.ts | 2025-01-15T10:05:00Z | claimed |
-| jwt-middleware | src/middleware/index.ts | 2025-01-15T10:05:00Z | claimed |
-| jwt-middleware | src/types/auth.ts | 2025-01-15T10:05:00Z | claimed |
-| auth-endpoints | src/routes/auth.ts | 2025-01-15T10:05:00Z | pending |
-| auth-endpoints | src/routes/index.ts | 2025-01-15T10:05:00Z | pending |
-| auth-endpoints | src/services/auth.ts | 2025-01-15T10:05:00Z | pending |
-```
-
-Note: auth-endpoints claims are "pending" until jwt-middleware completes.
-
-## Phase 5: Implementation
-
-### Batch 1: jwt-middleware
-
-Launch jwt-middleware agent with implementation instructions:
-```
-Execute your approved plan from .claude/swarm-plans/jwt-middleware.md
-Only modify files claimed by jwt-middleware in .claude/file-claims.md
-```
-
-**Status after 45 seconds** (from status-checker):
-```json
-{
-  "overall_health": "healthy",
-  "agents": {
-    "jwt-middleware": {"status": "working", "progress": "Creating middleware"}
-  }
-}
-```
-
-**Status after 2 minutes**:
-```json
-{
-  "overall_health": "healthy",
-  "agents": {
-    "jwt-middleware": {"status": "completed"}
-  }
-}
-```
-
-### Release Claims & Activate Batch 2
-
-Updated `.claude/file-claims.md`:
-```markdown
-| jwt-middleware | src/middleware/auth.ts | 2025-01-15T10:05:00Z | released |
-| jwt-middleware | src/middleware/index.ts | 2025-01-15T10:05:00Z | released |
-| jwt-middleware | src/types/auth.ts | 2025-01-15T10:05:00Z | released |
-| auth-endpoints | src/routes/auth.ts | 2025-01-15T10:07:00Z | claimed |
-| auth-endpoints | src/routes/index.ts | 2025-01-15T10:07:00Z | claimed |
-| auth-endpoints | src/services/auth.ts | 2025-01-15T10:07:00Z | claimed |
-| auth-endpoints | src/middleware/index.ts | 2025-01-15T10:07:00Z | claimed |
-```
-
-Note: auth-endpoints now also claims middleware/index.ts after jwt-middleware released it.
-
-### Batch 2: auth-endpoints
-
-Launch auth-endpoints agent with implementation instructions.
-
-**Status after 3 minutes**:
-```json
-{
-  "overall_health": "healthy",
-  "agents": {
-    "jwt-middleware": {"status": "completed"},
-    "auth-endpoints": {"status": "completed"}
-  },
-  "completion_percentage": 100
-}
-```
-
-## Phase 6: Verification
-
-Checks:
-- [x] jwt-middleware completed
-- [x] auth-endpoints completed
-- [x] All files modified as planned
-- [x] No orphaned claims
-- [x] Build succeeds
-- [x] Tests pass
-
-## Phase 7: Summary
-
-```markdown
-## Swarm Completion Report
-
-### Task: Add user authentication
-### Duration: 8 minutes
-### Agents: 2
-
-### Files Created
-- src/middleware/auth.ts
-- src/types/auth.ts
-- src/routes/auth.ts
-- src/services/auth.ts
-
-### Files Modified
-- src/middleware/index.ts
-- src/routes/index.ts
-
-### Conflicts Resolved
-- 1 conflict on src/middleware/index.ts (sequential resolution)
-
-### Status: SUCCESS
-```

plugins/swarm-coordination/skills/swarm-patterns/references/checkpoint-flow.md

@@ -1,287 +0,0 @@
-# Checkpoint-Based Orchestration
-
-A phased approach to swarm execution that prevents conflicts through planning, review, and controlled implementation.
-
-## Overview
-
-Checkpoint-based orchestration separates swarm execution into distinct phases:
-
-1. **Planning** - Agents analyze and plan (read-only)
-2. **Review** - Orchestrator detects conflicts
-3. **Resolution** - Conflicts resolved before implementation
-4. **Claiming** - Files assigned to agents
-5. **Implementation** - Agents execute plans
-6. **Verification** - Results validated
-
-## Why Checkpoints?
-
-### Without Checkpoints
-```
-Launch agents → Agents work in parallel → CONFLICT! →
-Agents overwrite each other → Endless fix loops → Chaos
-```
-
-### With Checkpoints
-```
-Launch planning agents → Collect plans → Detect conflicts →
-Resolve conflicts → Claim files → Sequential/parallel execution → Success
-```
-
-## Phase Details
-
-### Phase 1: Planning (Parallel, Read-Only)
-
-**Purpose**: Gather implementation plans without making changes
-
-**Key Rules**:
-- Agents may READ any file
-- Agents must NOT WRITE any file
-- Each agent produces a structured plan
-
-**Agent Instructions**:
-```markdown
-You are in PLANNING MODE. Analyze the codebase and create an implementation plan.
-
-CRITICAL RESTRICTIONS:
-- DO NOT use Edit, Write, or any file modification tools
-- DO NOT execute commands that modify files
-- ONLY use Read, Glob, Grep for analysis
-
-Your output must be a structured plan listing:
-- All files you need to modify (with full paths)
-- All files you need to create
-- All files you need to delete
-- Dependencies on other components
-- Step-by-step implementation approach
-```
-
-**Plan Format**:
-```markdown
-## Agent Plan: [agent-id]
-
-### Task Summary
-[1-2 sentence description of what this agent will accomplish]
-
-### Files to Modify
-- `src/auth/handler.ts`: Add validateToken() function and update handleRequest()
-- `src/types/auth.ts`: Add TokenPayload interface
-
-### Files to Create
-- `src/auth/tokens.ts`: Token generation and validation utilities
-
-### Files to Delete
-- `src/auth/legacy-auth.ts`: Replaced by new implementation
-
-### Dependencies
-- **Requires**: Database schema must include users table
-- **Blocks**: API routes cannot be updated until auth is complete
-
-### Implementation Steps
-1. Create TokenPayload interface in types
-2. Implement token utilities in new file
-3. Update handler with validation logic
-4. Remove legacy file after verification
-
-### Estimated Scope
-- Files touched: 4
-- Lines added: ~150
-- Lines removed: ~80
-- Risk level: Medium (touching auth system)
-```
-
-### Phase 2: Conflict Detection
-
-**Purpose**: Identify overlapping file edits before they happen
-
-**Process**:
-1. Collect all agent plans
-2. Build file → agent mapping
-3. Identify conflicts:
-   - Same file modified by multiple agents
-   - Delete conflicts with modify
-   - Creation conflicts
-   - Dependency cycles
-
-**Conflict Types**:
-
-| Type | Severity | Example |
-|------|----------|---------|
-| Same file modify | Critical | agent-1 and agent-2 both modify handler.ts |
-| Create collision | Critical | Both agents create utils/helper.ts |
-| Delete + Modify | Critical | agent-1 deletes file agent-2 modifies |
-| Dependency cycle | Critical | agent-1 waits for agent-2, agent-2 waits for agent-1 |
-| Same directory | Warning | Both agents add files to src/utils/ |
-| Import chain | Info | agent-1's file imports from agent-2's file |
-
-### Phase 3: Resolution
-
-**Purpose**: Resolve all conflicts before implementation begins
-
-**Resolution Strategies**:
-
-**Sequential Execution**:
-```markdown
-Conflict: agent-1 and agent-2 both modify src/api/index.ts
-
-Resolution: Execute sequentially
-- Execution order: agent-1 first, then agent-2
-- agent-2 will see agent-1's changes before starting
-```
-
-**Scope Reassignment**:
-```markdown
-Conflict: agent-1 (auth) and agent-2 (logging) both modify middleware.ts
-
-Resolution: Reassign to single agent
-- Expand agent-1's scope to include logging changes
-- Remove middleware.ts from agent-2's plan
-```
-
-**File Splitting**:
-```markdown
-Conflict: agent-1 and agent-2 both modify large config.ts
-
-Resolution: Split the file
-- Create config/auth.ts (agent-1)
-- Create config/db.ts (agent-2)
-- Update config/index.ts to re-export
-```
-
-**User Decision**:
-```markdown
-Conflict: Complex dependency between agent-1 and agent-3
-
-Resolution: Present to user
-"Agents 1 and 3 have interleaved dependencies. Options:
-1. Merge into single agent
-2. Manual sequencing with intermediate reviews
-3. Redesign the task split"
-```
-
-### Phase 4: File Claiming
-
-**Purpose**: Register file ownership before implementation
-
-**Process**:
-1. For each resolved plan, register claims
-2. Update `.claude/file-claims.md`
-3. Determine execution batches
-
-**Execution Order Determination**:
-```markdown
-Given resolved plans:
-- agent-1: No dependencies
-- agent-2: No dependencies
-- agent-3: Depends on agent-1
-- agent-4: Depends on agent-2 and agent-3
-
-Execution order:
-Batch 1 (parallel): agent-1, agent-2
-Batch 2 (after batch 1): agent-3
-Batch 3 (after agent-3): agent-4
-```
-
-### Phase 5: Implementation with Monitoring
-
-**Purpose**: Execute plans with status tracking
-
-**Process**:
-1. Launch batch 1 agents
-2. Start polling loop (every 30-60 seconds)
-3. As agents complete:
-   - Release their file claims
-   - Launch dependent agents
-4. Handle issues as detected:
-   - Stuck agents → investigate/reassign
-   - Conflicts → pause and resolve
-   - Failures → report and decide
-
-**Agent Instructions for Implementation**:
-```markdown
-You are now in IMPLEMENTATION MODE. Execute your approved plan.
-
-Your approved plan is in: .claude/swarm-plans/[your-agent-id].md
-Your claimed files are in: .claude/file-claims.md
-
-RULES:
-1. Only modify files that are claimed by YOUR agent ID
-2. Follow your plan exactly - do not expand scope
-3. If you need to modify an unclaimed file, STOP and report
-4. Update progress by completing your assigned tasks
-```
-
-### Phase 6: Verification
-
-**Purpose**: Validate swarm completed successfully
-
-**Checks**:
-- [ ] All agents reported completion
-- [ ] All planned files were modified
-- [ ] No orphaned file claims
-- [ ] Build succeeds (if applicable)
-- [ ] Tests pass (if applicable)
-- [ ] No unexpected files modified
-
-## Checkpoint Gates
-
-Each phase has a gate that must pass before proceeding:
-
-| Gate | Condition | Failure Action |
-|------|-----------|----------------|
-| Planning → Review | All planning agents completed | Wait or timeout |
-| Review → Resolution | Conflict report generated | Re-run detection |
-| Resolution → Claiming | All conflicts resolved | Return to resolution |
-| Claiming → Implementation | All files claimed, no overlaps | Fix claim issues |
-| Implementation → Verification | All agents completed | Investigate failures |
-| Verification → Complete | All checks pass | Fix issues or report |
-
-## State Machine
-
-```
-┌─────────────┐
-│ INITIALIZED │
-└──────┬──────┘
-       │ Start swarm
-       ▼
-┌─────────────┐
-│  PLANNING   │◄────────────────┐
-└──────┬──────┘                 │
-       │ All plans received     │
-       ▼                        │
-┌─────────────┐                 │
-│  REVIEWING  │                 │
-└──────┬──────┘                 │
-       │ Conflicts identified   │
-       ▼                        │
-┌─────────────┐                 │
-│  RESOLVING  │─────────────────┘
-└──────┬──────┘  Need re-plan
-       │ All resolved
-       ▼
-┌─────────────┐
-│  CLAIMING   │
-└──────┬──────┘
-       │ Files assigned
-       ▼
-┌─────────────┐
-│IMPLEMENTING │◄───┐
-└──────┬──────┘    │
-       │           │ Next batch
-       ▼           │
-┌─────────────┐    │
-│  VERIFYING  │────┘
-└──────┬──────┘  More batches
-       │ All verified
-       ▼
-┌─────────────┐
-│  COMPLETED  │
-└─────────────┘
-```
-
-## Benefits
-
-1. **No Conflicts**: Detected and resolved before implementation
-2. **Visibility**: Know exactly what each agent will do
-3. **Control**: Orchestrator maintains full oversight
-4. **Recovery**: Can roll back or adjust between phases
-5. **Efficiency**: Parallel execution where safe, sequential where needed

plugins/swarm-coordination/skills/swarm-patterns/references/file-claiming.md

@@ -1,233 +0,0 @@
-# File Claiming Convention
-
-A coordination protocol where agents claim file ownership before editing to prevent conflicts.
-
-## Overview
-
-File claiming is a simple but effective convention:
-1. Before editing any file, agent checks if it's claimed
-2. If unclaimed or claimed by self, proceed
-3. If claimed by another agent, skip and report
-4. After completion, release claims
-
-## The Claims Registry
-
-Location: `.claude/file-claims.md`
-
-### Format
-
-```markdown
-# File Claims Registry
-
-Last updated: 2025-01-15T10:30:00Z
-Swarm ID: swarm-20250115-abc123
-
-| Agent ID | File Path | Claimed At | Status |
-|----------|-----------|------------|--------|
-| auth-impl | src/auth/handler.ts | 2025-01-15T10:00:00Z | claimed |
-| auth-impl | src/auth/types.ts | 2025-01-15T10:00:00Z | claimed |
-| auth-impl | src/auth/middleware.ts | 2025-01-15T10:00:00Z | claimed |
-| db-agent | src/db/schema.ts | 2025-01-15T10:00:00Z | released |
-| db-agent | src/db/queries.ts | 2025-01-15T10:00:00Z | released |
-```
-
-### Status Values
-
-| Status | Meaning |
-|--------|---------|
-| `claimed` | Agent is actively working on this file |
-| `released` | Agent completed, file available |
-| `conflict` | Multiple agents claimed (needs resolution) |
-
-## Agent Instructions
-
-Include this block in every implementation agent's system prompt:
-
-```markdown
-## File Claiming Protocol
-
-You are part of a coordinated swarm. Follow these rules strictly:
-
-### Before ANY File Edit
-
-1. Read `.claude/file-claims.md`
-2. Find the file you want to edit in the registry
-3. Check the claim status:
-
-**If claimed by YOUR agent ID** → Proceed with edit
-**If claimed by ANOTHER agent** → DO NOT edit, report:
-   "Skipped [file] - claimed by [other-agent]"
-**If file NOT in registry** → DO NOT edit, report:
-   "Cannot edit [file] - not in approved claims"
-
-### During Execution
-
-- Only edit files explicitly claimed by you
-- If you discover a need to edit an unclaimed file, report it
-- Do not modify the claims registry yourself
-
-### After Completion
-
-Report all files you modified so claims can be released.
-```
-
-## Claim Lifecycle
-
-```
-┌─────────────────────────────────────────────────────────┐
-│                    PLANNING PHASE                        │
-│  Agent creates plan → Lists files to modify              │
-└────────────────────────┬────────────────────────────────┘
-                         │
-                         ▼
-┌─────────────────────────────────────────────────────────┐
-│                  CONFLICT DETECTION                      │
-│  Orchestrator reviews all plans → Identifies overlaps   │
-│  Resolves conflicts → Determines execution order         │
-└────────────────────────┬────────────────────────────────┘
-                         │
-                         ▼
-┌─────────────────────────────────────────────────────────┐
-│                    CLAIM REGISTRATION                    │
-│  Orchestrator writes claims to registry                  │
-│  Each file → exactly one agent                          │
-└────────────────────────┬────────────────────────────────┘
-                         │
-                         ▼
-┌─────────────────────────────────────────────────────────┐
-│                    IMPLEMENTATION                        │
-│  Agents check registry before each edit                  │
-│  Only edit files claimed by self                        │
-└────────────────────────┬────────────────────────────────┘
-                         │
-                         ▼
-┌─────────────────────────────────────────────────────────┐
-│                    CLAIM RELEASE                         │
-│  Agent completes → Reports to orchestrator              │
-│  Orchestrator marks claims as "released"                │
-└─────────────────────────────────────────────────────────┘
-```
-
-## Conflict Resolution Strategies
-
-When multiple agents need the same file:
-
-### Strategy 1: Sequential Execution
-
-```markdown
-Conflict: agent-1 and agent-3 both need src/api/handler.ts
-
-Resolution:
-- agent-1 claims file, executes first
-- After agent-1 completes, release claim
-- agent-3 claims file, executes second
-```
-
-### Strategy 2: Scope Partition
-
-```markdown
-Conflict: agent-1 and agent-2 both need src/types/index.ts
-
-Resolution:
-- Split file into src/types/auth.ts and src/types/user.ts
-- agent-1 claims auth.ts
-- agent-2 claims user.ts
-- Update index.ts to re-export (claimed by orchestrator)
-```
-
-### Strategy 3: Merge Responsibility
-
-```markdown
-Conflict: agent-1 (auth) and agent-2 (validation) both need middleware.ts
-
-Resolution:
-- Expand agent-1's scope to include validation changes
-- Remove middleware.ts from agent-2's plan
-- agent-1 handles all middleware changes
-```
-
-### Strategy 4: Section-Based Claims
-
-```markdown
-Conflict: Multiple agents need same config file
-
-Resolution:
-- Claim specific sections rather than whole file
-- agent-1 claims: config.ts lines 1-50 (auth section)
-- agent-2 claims: config.ts lines 51-100 (db section)
-- Requires careful merge at end
-```
-
-## Handling Violations
-
-### Agent Edits Unclaimed File
-
-```markdown
-Detected: agent-2 modified src/utils/helper.ts (not in claims)
-
-Response:
-1. Flag as violation in status report
-2. Options:
-   a. Add retroactive claim if no conflict
-   b. Revert change if conflicts with another agent
-   c. Pause agent and request clarification
-```
-
-### Agent Edits Another's File
-
-```markdown
-Detected: agent-2 modified src/auth/handler.ts (claimed by agent-1)
-
-Response:
-1. CRITICAL violation
-2. Pause agent-2 immediately
-3. Check if agent-1's work is corrupted
-4. Options:
-   a. Revert agent-2's changes
-   b. Have agent-1 re-do affected work
-   c. Manual merge by orchestrator
-```
-
-## Best Practices
-
-1. **Register claims BEFORE launching agents** - Not during
-2. **One file, one owner** - Never have overlapping claims
-3. **Include all touched files** - Even read-heavy files if modified
-4. **Release promptly** - Don't hold claims after completion
-5. **Verify at completion** - Check all claimed files were handled
-6. **Track unclaimed edits** - They indicate planning gaps
-
-## Claims Registry Management
-
-### Creating the Registry
-
-```markdown
-# File Claims Registry
-
-Last updated: [timestamp]
-Swarm ID: [swarm-id]
-
-| Agent ID | File Path | Claimed At | Status |
-|----------|-----------|------------|--------|
-```
-
-### Adding Claims (Orchestrator Only)
-
-```markdown
-| new-agent | src/new/file.ts | [timestamp] | claimed |
-```
-
-### Releasing Claims
-
-Change status from `claimed` to `released`:
-
-```markdown
-| agent-id | src/file.ts | [timestamp] | released |
-```
-
-### Cleaning Up
-
-After swarm completion:
-1. Archive registry to `.claude/swarm-history/`
-2. Delete or clear current registry
-3. Ready for next swarm

plugins/swarm-coordination/skills/swarm-patterns/references/status-polling.md

@@ -1,152 +0,0 @@
-# Status Polling Pattern
-
-Proactive orchestrator monitoring for swarm health and conflict detection.
-
-## Overview
-
-Instead of fire-and-forget agent launching, the orchestrator periodically spawns lightweight "status checker" agents to monitor swarm progress and identify issues early.
-
-## Why Polling Matters
-
-Without polling:
-- Orchestrator has no visibility into agent progress
-- Conflicts discovered only after damage is done
-- Stuck agents waste time until final timeout
-- No opportunity for mid-execution corrections
-
-With polling:
-- Real-time visibility into agent status
-- Conflicts detected and resolved quickly
-- Stuck agents identified and reassigned
-- Dynamic load balancing possible
-
-## Polling Schedule
-
-### Recommended Intervals
-
-| Phase | Interval | Reason |
-|-------|----------|--------|
-| Initial launch | 30 seconds | Catch early failures fast |
-| Active execution | 45-60 seconds | Balance visibility vs overhead |
-| Near completion | 30 seconds | Ensure clean handoffs |
-| Post-completion | Immediate | Verify success, launch next batch |
-
-### Adaptive Polling
-
-Adjust frequency based on:
-- **More frequent**: High-conflict swarms, many parallel agents
-- **Less frequent**: Simple tasks, sequential execution
-- **Immediate**: After any agent reports an issue
-
-## Status Checker Agent
-
-The status-checker agent is designed for fast, lightweight execution:
-
-```yaml
-model: haiku  # Fast and cheap
-tools: Read, Glob, Grep  # Read-only, no edits
-```
-
-### What It Checks
-
-1. **Agent Status**
-   - Last update timestamp
-   - Current task progress
-   - Reported errors or warnings
-
-2. **File Claims**
-   - Ownership conflicts
-   - Stale claims from completed agents
-   - Unclaimed files being edited
-
-3. **Overall Health**
-   - Completion percentage
-   - Estimated time remaining
-   - Bottlenecks and blockers
-
-### Output Format
-
-```json
-{
-  "timestamp": "2025-01-15T10:35:00Z",
-  "overall_health": "warning",
-  "completion_percentage": 65,
-  "issues": {
-    "conflicts": [{
-      "file": "src/api/handler.ts",
-      "agents": ["agent-1", "agent-3"],
-      "severity": "critical"
-    }],
-    "stuck_agents": [{
-      "id": "agent-2",
-      "last_update": "2025-01-15T10:30:00Z",
-      "duration_seconds": 300
-    }]
-  },
-  "recommendations": [
-    {"action": "pause", "target": "agent-3", "reason": "resolve conflict"}
-  ]
-}
-```
-
-## Responding to Status Reports
-
-### Healthy Status
-```json
-{"overall_health": "healthy"}
-```
-- Continue execution
-- Schedule next poll at normal interval
-
-### Warning Status
-```json
-{"overall_health": "warning", "issues": {...}}
-```
-- Review specific issues
-- Take corrective action if needed
-- Increase polling frequency temporarily
-
-### Critical Status
-```json
-{"overall_health": "critical", "issues": {...}}
-```
-- Pause affected agents immediately
-- Resolve conflicts before continuing
-- Consider notifying user for input
-
-## Implementation Example
-
-```markdown
-## During Implementation Phase
-
-1. Launch batch 1 agents (agent-1, agent-2)
-2. Wait 30 seconds
-3. Launch status-checker agent
-4. If healthy: continue, schedule next check in 45 seconds
-5. If issues:
-   - Conflicts: Pause later agent, let first complete
-   - Stuck: Check logs, consider timeout or reassignment
-   - Failed: Report to user, decide on retry/skip
-6. Repeat until all agents complete
-```
-
-## Polling vs Event-Driven
-
-| Approach | Pros | Cons |
-|----------|------|------|
-| Polling | Simple, no agent modification needed | Some latency in detection |
-| Events | Immediate detection | Requires agent cooperation |
-
-This plugin uses polling because:
-- Works with any agent without modification
-- Orchestrator maintains full control
-- Simpler implementation
-- Haiku model makes polling cheap
-
-## Best Practices
-
-1. **Use haiku for status checks** - Fast and cheap
-2. **Don't poll too frequently** - 30 seconds minimum
-3. **Act on issues promptly** - Don't just log and continue
-4. **Track polling history** - Useful for debugging
-5. **Combine with file claims** - Polling detects, claims prevent

scripts/comment-on-duplicates.sh

@@ -0,0 +1,100 @@
+#!/usr/bin/env bash
+#
+# Comments on a GitHub issue with a list of potential duplicates.
+# Usage: ./comment-on-duplicates.sh --base-issue 123 --potential-duplicates 456 789 101
+#
+
+set -euo pipefail
+
+REPO="anthropics/claude-code"
+BASE_ISSUE=""
+DUPLICATES=()
+
+# Parse arguments
+while [[ $# -gt 0 ]]; do
+  case $1 in
+    --base-issue)
+      BASE_ISSUE="$2"
+      shift 2
+      ;;
+    --potential-duplicates)
+      shift
+      while [[ $# -gt 0 && ! "$1" =~ ^-- ]]; do
+        DUPLICATES+=("$1")
+        shift
+      done
+      ;;
+    *)
+      echo "Unknown option: $1" >&2
+      exit 1
+      ;;
+  esac
+done
+
+# Validate base issue
+if [[ -z "$BASE_ISSUE" ]]; then
+  echo "Error: --base-issue is required" >&2
+  exit 1
+fi
+
+if ! [[ "$BASE_ISSUE" =~ ^[0-9]+$ ]]; then
+  echo "Error: --base-issue must be a number, got: $BASE_ISSUE" >&2
+  exit 1
+fi
+
+# Validate duplicates
+if [[ ${#DUPLICATES[@]} -eq 0 ]]; then
+  echo "Error: --potential-duplicates requires at least one issue number" >&2
+  exit 1
+fi
+
+if [[ ${#DUPLICATES[@]} -gt 3 ]]; then
+  echo "Error: --potential-duplicates accepts at most 3 issues" >&2
+  exit 1
+fi
+
+for dup in "${DUPLICATES[@]}"; do
+  if ! [[ "$dup" =~ ^[0-9]+$ ]]; then
+    echo "Error: duplicate issue must be a number, got: $dup" >&2
+    exit 1
+  fi
+done
+
+# Validate that base issue exists
+if ! gh issue view "$BASE_ISSUE" --repo "$REPO" &>/dev/null; then
+  echo "Error: issue #$BASE_ISSUE does not exist in $REPO" >&2
+  exit 1
+fi
+
+# Validate that all duplicate issues exist
+for dup in "${DUPLICATES[@]}"; do
+  if ! gh issue view "$dup" --repo "$REPO" &>/dev/null; then
+    echo "Error: issue #$dup does not exist in $REPO" >&2
+    exit 1
+  fi
+done
+
+# Build comment body
+COUNT=${#DUPLICATES[@]}
+if [[ $COUNT -eq 1 ]]; then
+  HEADER="Found 1 possible duplicate issue:"
+else
+  HEADER="Found $COUNT possible duplicate issues:"
+fi
+
+BODY="$HEADER"$'\n\n'
+INDEX=1
+for dup in "${DUPLICATES[@]}"; do
+  BODY+="$INDEX. https://github.com/$REPO/issues/$dup"$'\n'
+  ((INDEX++))
+done
+
+BODY+=$'\n'"This issue will be automatically closed as a duplicate in 3 days."$'\n\n'
+BODY+="- If your issue is a duplicate, please close it and 👍 the existing issue instead"$'\n'
+BODY+="- To prevent auto-closure, add a comment or 👎 this comment"$'\n\n'
+BODY+="🤖 Generated with [Claude Code](https://claude.ai/code)"
+
+# Post the comment
+gh issue comment "$BASE_ISSUE" --repo "$REPO" --body "$BODY"
+
+echo "Posted duplicate comment on issue #$BASE_ISSUE"