Unify agent startup with Manager pattern

Refactors all agent startup paths (witness, refinery, crew, polecat) to use
a consistent Manager interface with Start(), Stop(), IsRunning(), and
SessionName() methods.

Includes:
- Witness manager with GUPP propulsion nudge for startup
- Refinery manager for engineer sessions
- Crew manager for worker agents
- Session/polecat manager updates
- claude_settings_check doctor check for settings validation
- Settings management consolidated from rig/manager.go
- Settings location moved outside source repos to prevent conflicts

🤖 Generated with [Claude Code](https://claude.com/claude-code)

Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>

internal/refinery/manager.go

@@ -166,8 +166,10 @@ func (m *Manager) Start(foreground bool) error {
 		refineryRigDir = m.workDir
 	}
 
-	// Ensure Claude settings exist (autonomous role needs mail in SessionStart)
-	if err := claude.EnsureSettingsForRole(refineryRigDir, "refinery"); err != nil {
+	// Ensure Claude settings exist in refinery/ (not refinery/rig/) so we don't
+	// write into the source repo. Claude walks up the tree to find settings.
+	refineryParentDir := filepath.Join(m.rig.Path, "refinery")
+	if err := claude.EnsureSettingsForRole(refineryParentDir, "refinery"); err != nil {
 		return fmt.Errorf("ensuring Claude settings: %w", err)
 	}