`sync_skills()` keys the bundled manifest by frontmatter name but computes
the destination from the bundled path. When upstream renames or
recategorizes a skill, the manifest key still matches while the new dest
does not exist yet, so the loop fell into its "in manifest but not on
disk" branch and misread the skill as user-deleted: the user's copy was
stranded at the old path forever and never received another update.
Three skills hit this in the July 2026 reorg (computer-use,
evaluating-llms-harness, serving-llms-vllm) — silently frozen at their
pre-rename content on every machine that ran `hermes update`.
Recovery only moves a stale copy when it is byte-identical to the origin
hash recorded the last time sync wrote it, which proves the directory is
ours rather than the user's work. User-modified copies are kept in place
with a warning, hub-installed paths are never touched, and a genuine
deletion (no copy anywhere on disk) is still respected.
- tools/skills_sync.py: add _recover_renamed_skill() plus the
_index_active_skills() / _read_hub_install_paths() indexes; call it
before classification and report moves via a new `relocated` key.
- hermes_cli/main.py: surface relocations in both `hermes update` skill
sync reporting sites.
- tests: 4 cases covering relocate, user-modified preservation,
hub-installed exemption, and genuine-deletion respect.
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