Hook files (gsd-statusline.js, gsd-check-update.js, gsd-context-monitor.js)
are installed during updates but were never included in gsd-file-manifest.json.
This means saveLocalPatches() could not detect user modifications to hooks,
causing them to be silently overwritten on update with no backup.
Add hooks/gsd-*.js to writeManifest() so the existing local patch detection
system automatically backs up modified hooks to gsd-local-patches/ before
overwriting, matching the behavior already in place for workflows, commands,
and agents.
Co-Authored-By: Claude Opus 4.6 (1M context) <noreply@anthropic.com>
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