docs: sync threat model current main commands#116
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Summary\n\n- Syncs the threat model with current-main post-v0.3.0 dedupe and conflicts command boundaries.\n- Keeps dedupe and conflicts documented as read-only current-main additions, not published PyPI package behavior yet.\n- Updates CHANGELOG.md.\n\n## Verification\n\n- ./scripts/check.sh passed.\n- ./scripts/post-release-audit.sh passed after commit in isolated venv.\n- No runtime, release, tag, PyPI, CI, dependency, or branch-protection changes.