fix(agent-core-v2): honor configured permission rules - #2337
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Related Issue
Fixes #2100
Problem
See linked issue.
What changed
Load configured permission rules into the effective Agent permission rule view alongside live runtime rules.
This keeps configured rules outside the persisted Agent wire state, so resumed agents continue to read the current configuration without duplicating or retaining stale rules.
Added regression coverage for merging configured and runtime rules, and for approving a configured MCP tool before the manual-mode fallback.
Manually verified in
kimi webthat an MCP call prompts without an allow rule and executes without prompting after adding the matching rule.Checklist