[BUG] Skills and hooks not available in worktrees created by `claude -w`

Preflight Checklist

• [x] I have searched existing issues and this hasn't been reported yet
• [x] This is a single bug report (please file separate reports for different bugs)
• [x] I am using the latest version of Claude Code

What's Wrong?

Skills and hooks not available in worktrees created by claude -w

What Should Happen?

When creating a worktree with claude -w <name>, Claude Code places it at
.claude/worktrees/<name>. This causes the .claude/ directory discovery
logic to resolve to .claude/worktrees/<name>/.claude/ (which only contains
a copied settings.local.json) instead of the project root's .claude/.

As a result:

• Skills defined in .claude/skills/ are not loaded in the worktree session
• Hook scripts referenced by relative paths (e.g. node .claude/hooks/foo.js)

fail because the path resolves against the worktree directory, not the project root

Error Messages/Logs

Steps to Reproduce

1. Have a project at D:/Code/MyProject with skills in .claude/skills/ and

hooks in .claude/hooks/

1. Run claude -w feat-123 — worktree is created at

.claude/worktrees/feat-123

1. Open the worktree session — skills are missing, hooks fail to execute

Claude Model

None

Is this a regression?

Yes, this worked in a previous version

Last Working Version

_No response_

Claude Code Version

2.1.96

Platform

Other

Operating System

Windows

Terminal/Shell

PowerShell

Additional Information

_No response_