Problem

55 #[allow(clippy::too_many_lines)] suppressions exist across the workspace, with 9 concentrated in crates/zeph-core/src/agent/mod.rs. These indicate functions that exceed the configured line limit and should be decomposed.

Key offenders in agent/mod.rs:

• new() and new_with_registry_arc() (constructor logic)
• run() main agent loop
• Context assembly methods
• Plan execution methods

Proposed Changes

1. Extract channel message dispatch logic into dedicated handler functions
2. Move plan execution flow into the orchestration module
3. Decompose context assembly into context_manager methods
4. Split MCP/skill reload handling into their respective modules
5. Target: reduce total suppressions to <= 10 workspace-wide

Files

• crates/zeph-core/src/agent/mod.rs (primary, 9 suppressions)
• Various other files (46 suppressions across workspace)