# NousResearch/hermes-agent · Stale bundled_manifest entries after profile clone

## Open now

- 2 issues, 3 PRs open on GitHub.
- #48211: \[Bug\]: \`--clone\` copies stale \`.bundled_manifest\` entries, permanently blocking skill re-seeding
- #54085: Profile skill manifests can suppress missing bundled skills indefinitely
- PR #48223: fix(profiles): prune stale bundled_manifest entries after profile clone
- PR #48235: fix(cli): prune stale bundled_manifest entries on profile clone
- PR #54113: fix: track bundled-skill deletions via explicit tombstone file

These issues and pull requests concern a bug where cloning a profile copies stale \`.bundled_manifest\` entries, which can indefinitely suppress re-seeding of missing bundled skills. Proposed fixes involve pruning or tombstoning those stale entries during or after the clone operation.

## TL;DR

- 6 member(s): 2 open issue(s), 0 closed issue(s), 3 open PR(s), 0 merged PR(s), 1 PR(s) closed without merging.
- No fix has been merged to main; one or more PRs were attempted (see below).
- **Recommended:** review the prior/competing PR(s) below. A fix was attempted but not merged; your case may extend or revive that work.

## Maintainer resolution verdict

- Internal-tracker verdict over this cluster's issue members: `unresolved`. This is distinct from the fix status above. Weigh it yourself.

## How this cluster was grouped

- Link evidence (`STRUCTURAL_PARTIAL`): some members are connected by structural evidence (shared changed files, or a closing/superseded reference); the rest are joined by an automated relevance judgement over their text.
- Members outside that structural core may belong to a different underlying problem.
- Pairwise link density `0.29`: the share of member pairs that carry a link, counting a structural link in full and a relevance-only link at 0.36. `1.00` means every pair is linked.

## Open related issues

- #48211: \[Bug\]: \`--clone\` copies stale \`.bundled_manifest\` entries, permanently blocking skill re-seeding
- #54085: Profile skill manifests can suppress missing bundled skills indefinitely

## Prior & competing PRs

- **#48223: fix(profiles): prune stale bundled_manifest entries after profile clone**. open
  - maintainer direction: category `uncategorized`; implication `needs_llm`
  - files: `hermes_cli/profiles.py`, `tests/hermes_cli/test_profiles.py`
- **#48235: fix(cli): prune stale bundled_manifest entries on profile clone**. open
  - maintainer direction: category `duplicate_of`; implication `duplicate`; refs `#48223`, `#48211`, `#48223`
  - files: `hermes_cli/profiles.py`
- **#48250: fix(profiles): drop stale .bundled_manifest on profile clone (#48211)**. closed without merge
  - maintainer direction: category `uncategorized`; implication `needs_llm`
- **#54113: fix: track bundled-skill deletions via explicit tombstone file**. open
  - maintainer direction: category `uncategorized`; implication `needs_llm`
  - files: `tests/tools/test_skills_list_modified_diff.py`, `tests/tools/test_skills_sync.py`, `tools/skills_sync.py`

## Fix status

- No merged fix on record.
- Subsystem: `hermes_cli`