Maxim Brashenko eba9423ce0 fix(config): prevent workflow.research reset during milestone transitions ...

Two bugs caused workflow.research to silently reset to false:

1. new-milestone.md unconditionally overwrote workflow.research via
   config-set after asking about research — coupling a per-milestone
   decision to a persistent user preference. Now the research question
   is per-invocation only; persistent config changes via /gsd:settings.

2. verify.cjs health repair (createConfig/resetConfig) used flat keys
   (research, plan_checker, verifier) instead of the canonical nested
   workflow object from config.cjs, also missing branch templates,
   nyquist_validation, and brave_search fields.

Co-authored-by: Claude Opus 4.6 <noreply@anthropic.com>

2026-03-15 10:08:59 -06:00

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