Clean Merged Branch Folders

Overview

Remove only local Git worktree folders whose branch is already merged to main. Keep main, the current worktree, dirty worktrees, detached worktrees, and unmerged branches untouched.

Use the bundled script for the candidate detection and removal. It dry-runs by default and requires --apply before deleting any folder.

Workflow

1. Check the Repository

Start from any worktree for this repository:

git status --short --branch
git worktree list
git fetch origin main --prune

Resolve the active worktree root before running bundled scripts so the command also works when started from a subdirectory:

REPO_ROOT="$(git rev-parse --show-toplevel)"

Do not overwrite, revert, or remove local changes. If a worktree has uncommitted changes, leave it alone and mention it in the final update.

2. Preview Cleanup Candidates

Run the script in dry-run mode first:

python3 "$REPO_ROOT/.agents/skills/clean-merged-branch-folders/scripts/clean_merged_worktrees.py"

The script treats a worktree as safe to remove when:

• the worktree is on a local branch, not main or another protected branch;
• the worktree is not the current working directory;
• the worktree has no uncommitted changes;
• the branch commit is already contained in origin/main, or GitHub reports a merged PR for that branch into main.

If GitHub CLI is unavailable or unauthenticated, the script still uses Git's merge check. Squash-merged PR branches may require GitHub CLI because their exact branch commits are often not ancestors of main.

3. Remove Merged Worktree Folders

After reviewing the dry-run output, remove only the listed safe candidates:

python3 "$REPO_ROOT/.agents/skills/clean-merged-branch-folders/scripts/clean_merged_worktrees.py" --apply

Leave local branch refs in place unless the user explicitly asks to delete them. If branch deletion is requested, use:

python3 "$REPO_ROOT/.agents/skills/clean-merged-branch-folders/scripts/clean_merged_worktrees.py" --apply --delete-branches

The script uses git branch -d, not forced deletion, so branches that Git does not consider merged are preserved.

4. Validate the Result

Confirm the cleanup:

git worktree list
git status --short --branch

Keep the final update plain and practical: list the folders removed, any folders skipped, and whether local branch refs were kept or deleted.

Safety Rules

• Never remove main, the current worktree, dirty worktrees, detached worktrees, or unmerged branches.
• Never use rm -rf for registered Git worktrees. Use git worktree remove.
• Never force-delete branches unless the user explicitly asks and the branch has been checked carefully.
• Do not close GitHub issues or merge pull requests as part of this cleanup.