[codex] Fix CLI help and quest diagnostics

[MukundaKatta]

Summary

• regroup root help into Core and Inspection command groups
• align root help vocabulary around lore and quest verbs
• remove stale root help wording such as static binary and alias-forward references
• include quest diagnostics and storage robustness fixes already verified on this branch

Fixes #60
Refs #26
Refs #29

Validation

• go test ./internal/cli ./internal/quest ./internal/mcp
• git diff --check