Removing Worktree

Overview

Safely remove an autonomy worktree directory while preserving the autonomy branch, all commits, and iteration history. Only removes the working directory; git history remains intact.

Core principle: Worktree removal is destructive for working directory but non-destructive for git history. Branch and all commits persist.

When to Use

Use this skill when:

• User runs /remove-worktree command
• User finished with worktree and wants to clean up disk space
• User wants to recreate worktree from scratch
• User made mistakes in worktree and wants fresh start

DO NOT use for:

• Deleting branches (use git directly)
• Deleting iterations or journals (those are committed, can't be removed this way)
• Cleaning up non-autonomy worktrees

Quick Reference

Step	Action	Tool
1. Parse arguments	Extract --force flag and strategy-name	Manual
2. Detect repository root	Find git root from anywhere	Bash
3. Validate worktree exists	Check .worktrees/autonomy// exists	Bash
4. Safety checks	Check uncommitted changes (unless --force)	Bash
5. Remove worktree	git worktree remove	Bash
6. Cleanup metadata	git worktree prune	Bash
7. Report success	Confirm removal, note branch persists	Direct output

Process

Step 1: Parse Arguments

Extract arguments from command args:

Format: [--force] <strategy-name>

Parse:

force = false
strategy_name = ""

for arg in args:
  if arg == "--force":
    force = true
  else:
    if strategy_name != "":
      Error: "Multiple strategy names provided. Usage: /remove-worktree [--force] <strategy-name>"
    strategy_name = arg

if strategy_name == "":
  Error: "Strategy name required. Usage: /remove-worktree [--force] <strategy-name>"

Normalize strategy-name:

# Remove 'autonomy/' prefix if user included it
strategy_name=$(echo "$strategy_name" | sed 's/^autonomy\///')

Step 2: Detect Repository Root

Find the git repository root (same logic as forking-worktree):

# Get common git directory
git_common_dir=$(git rev-parse --git-common-dir)

# Repository root is parent of .git directory
if [ -d "$git_common_dir" ]; then
  repo_root=$(cd "$git_common_dir/.." && pwd)
else
  echo "Error: Unable to determine repository root"
  exit 1
fi

Step 3: Validate Worktree Exists

Check that the worktree actually exists:

worktree_path="$repo_root/.worktrees/autonomy/$strategy_name"

if [ ! -d "$worktree_path" ]; then
  echo "Error: Worktree not found: $worktree_path"
  echo ""
  echo "Available autonomy worktrees:"
  if [ -d "$repo_root/.worktrees/autonomy" ]; then
    ls -1 "$repo_root/.worktrees/autonomy"
  else
    echo "  (none)"
  fi
  echo ""
  echo "To see all worktrees: /list-worktrees"
  exit 1
fi

Step 4: Safety Checks

Check for uncommitted changes (unless --force):

if [ "$force" = false ]; then
  # Change to worktree directory to check status
  cd "$worktree_path"

  # Check for uncommitted changes
  if ! git diff-index --quiet HEAD -- 2>/dev/null; then
    echo "Error: Worktree has uncommitted changes"
    echo ""
    echo "Uncommitted changes in $worktree_path:"
    git status --short
    echo ""
    echo "Options:"
    echo "  1. Commit changes:"
    echo "     cd $worktree_path"
    echo "     /end-iteration  # or git commit"
    echo ""
    echo "  2. Force removal (discards changes):"
    echo "     /remove-worktree --force $strategy_name"
    exit 1
  fi

  # Check for untracked files (warn but allow)
  untracked_count=$(git ls-files --others --exclude-standard | wc -l)
  if [ "$untracked_count" -gt 0 ]; then
    echo "Warning: Worktree has $untracked_count untracked file(s)"
    echo ""
    git ls-files --others --exclude-standard | head -10
    echo ""
    echo "Proceeding with removal. Untracked files will be deleted."
    echo ""
  fi
fi

Step 5: Remove Worktree

Remove the worktree using git:

# Return to repo root for git worktree commands
cd "$repo_root"

# Remove worktree
if [ "$force" = true ]; then
  git worktree remove --force ".worktrees/autonomy/$strategy_name"
else
  git worktree remove ".worktrees/autonomy/$strategy_name"
fi

# Check if removal succeeded
if [ $? -ne 0 ]; then
  echo "Error: git worktree remove failed"
  echo ""
  echo "Manual removal command:"
  echo "  cd $repo_root"
  echo "  git worktree remove --force .worktrees/autonomy/$strategy_name"
  echo "  git worktree prune"
  exit 1
fi

Step 6: Cleanup Metadata

Prune stale worktree metadata:

# Clean up any stale administrative files
git worktree prune

# Verify worktree removed from git's list
if git worktree list | grep -q ".worktrees/autonomy/$strategy_name"; then
  echo "Warning: Worktree still appears in git worktree list"
  echo "Manual cleanup may be needed:"
  echo "  git worktree prune --verbose"
fi

Step 7: Report Success

Announce successful removal with important notes:

✓ Worktree removed successfully

Removed: .worktrees/autonomy/<strategy-name>/

Branch preserved:
- Branch: autonomy/<strategy-name>
- All commits and iteration tags remain in git history
- Can checkout branch later: git checkout autonomy/<strategy-name>
- Can create new worktree: /fork-worktree <strategy-name>  # (will fail if branch exists, use different name or delete branch first)

To delete the branch entirely:
  git branch -d autonomy/<strategy-name>  # Safe delete (only if merged)
  git branch -D autonomy/<strategy-name>  # Force delete

If force was used:

⚠️  Force removal completed

Any uncommitted changes in the worktree were discarded.

Important Notes

Destructive vs Non-Destructive

What gets destroyed (non-recoverable):

• Worktree working directory (.worktrees/autonomy/<strategy-name>/)
• Any uncommitted changes in that directory
• Any untracked files in that directory

What persists (safe):

• Branch autonomy/<strategy-name> (can still git checkout)
• All committed iteration journals
• All iteration tags (autonomy/<strategy-name>/iteration-NNNN)
• All git history and commits

Branch Still Exists

After worktree removal:

• Branch is "unlocked" (can be checked out elsewhere)
• All commits remain in git history
• Can checkout in main repo: git checkout autonomy/<strategy-name>
• Can create new worktree for same branch (but this skill creates new branch, not for existing)
• To work with existing branch in worktree: manual git command needed

Force Flag Behavior

Without --force:

• Checks for uncommitted changes (fails if found)
• Warns about untracked files (but proceeds)
• Safe for preserving work

With --force:

• Skips all safety checks
• Discards uncommitted changes
• Deletes untracked files
• Use when worktree is broken or changes are intentional throwaways

Cannot Remove Current Worktree

Git prevents removing the worktree you're currently in:

# This fails:
cd .worktrees/autonomy/experiment-a
/remove-worktree experiment-a
# Error: Cannot remove current working tree

Solution: Navigate to different directory first:

cd "$repo_root"  # Or any other directory
/remove-worktree experiment-a

Locked Worktrees

If worktree was locked (via git worktree lock):

• Removal fails with error
• Must unlock first: git worktree unlock .worktrees/autonomy/<strategy-name>
• Then retry removal

Common Mistakes

Mistake	Reality
"This deletes the branch"	NO. Only removes worktree directory. Branch persists.
"This deletes iteration journals"	NO. Journals are committed. They persist in git history.
"I can remove worktree I'm currently in"	NO. Must navigate away first.
"Force is always safe"	NO. Force discards uncommitted work. Use carefully.
"After removal, branch is gone"	NO. Branch still exists. Can checkout or delete separately.
"I'll also clean up the branch"	NO. Worktree removal is separate from branch deletion.

After Removing Worktree

Once worktree is removed:

• Directory .worktrees/autonomy/<strategy-name>/ no longer exists
• Branch autonomy/<strategy-name> still exists
• All iteration journals in git history
• All tags preserved
• Branch can be checked out in main repo or new worktree created for it
• Disk space freed

Manual Recovery

If automated removal fails or worktree is in broken state:

# Manual removal commands
cd <repo-root>

# Force remove worktree
git worktree remove --force .worktrees/autonomy/<strategy-name>

# If that fails, manually delete directory then prune
rm -rf .worktrees/autonomy/<strategy-name>
git worktree prune

# Verify cleanup
git worktree list

Relationship to Branch Deletion

Worktree removal ≠ Branch deletion

After removing worktree:

# Branch still exists
git branch -a | grep autonomy/<strategy-name>
# autonomy/<strategy-name>

# To also delete branch:
git branch -D autonomy/<strategy-name>

# This removes branch and all its commits from local repo
# (Tags remain unless explicitly deleted)

Use worktree removal for cleanup, branch deletion for ending exploration.