feat: Add mol_type schema field for molecule type classification (bd-oxgi)

Add mol_type field to beads for swarm coordination:
- Values: 'swarm' (multi-polecat), 'patrol' (recurring ops), 'work' (default)
- Nullable, defaults to empty string (treated as 'work')

Changes:
- Add mol_type column to SQLite schema and migration 031
- Add MolType type with IsValid() validation in types.go
- Update insertIssue/GetIssue to handle mol_type
- Add --mol-type flag to create command
- Add mol_type filtering to list and ready commands
- Update RPC protocol for daemon mode support
- Update test schema in migrations_test.go

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

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

internal/rpc/protocol.go

@@ -95,6 +95,8 @@ type CreateArgs struct {
 	// ID generation
 	IDPrefix  string `json:"id_prefix,omitempty"`  // Override prefix for ID generation (mol, eph, etc.)
 	CreatedBy string `json:"created_by,omitempty"` // Who created the issue
+	// Molecule type (for swarm coordination)
+	MolType string `json:"mol_type,omitempty"` // swarm, patrol, or work (default)
 }
 
 // UpdateArgs represents arguments for the update operation
@@ -203,6 +205,9 @@ type ListArgs struct {
 
 	// Ephemeral filtering
 	Ephemeral *bool `json:"ephemeral,omitempty"`
+
+	// Molecule type filtering
+	MolType string `json:"mol_type,omitempty"`
 }
 
 // CountArgs represents arguments for the count operation
@@ -264,6 +269,7 @@ type ReadyArgs struct {
 	Labels     []string `json:"labels,omitempty"`
 	LabelsAny  []string `json:"labels_any,omitempty"`
 	ParentID   string   `json:"parent_id,omitempty"` // Filter to descendants of this bead/epic
+	MolType    string   `json:"mol_type,omitempty"`  // Filter by molecule type: swarm, patrol, or work
 }
 
 // BlockedArgs represents arguments for the blocked operation

internal/rpc/server_issues_epics.go

@@ -196,6 +196,8 @@ func (s *Server) handleCreate(req *Request) Response {
 		// ID generation
 		IDPrefix:  createArgs.IDPrefix,
 		CreatedBy: createArgs.CreatedBy,
+		// Molecule type
+		MolType: types.MolType(createArgs.MolType),
 	}
 	
 	// Check if any dependencies are discovered-from type
@@ -918,6 +920,12 @@ func (s *Server) handleList(req *Request) Response {
 	// Ephemeral filtering
 	filter.Ephemeral = listArgs.Ephemeral
 
+	// Molecule type filtering
+	if listArgs.MolType != "" {
+		molType := types.MolType(listArgs.MolType)
+		filter.MolType = &molType
+	}
+
 	// Guard against excessive ID lists to avoid SQLite parameter limits
 	const maxIDs = 1000
 	if len(filter.IDs) > maxIDs {
@@ -1353,6 +1361,10 @@ func (s *Server) handleReady(req *Request) Response {
 	if readyArgs.ParentID != "" {
 		wf.ParentID = &readyArgs.ParentID
 	}
+	if readyArgs.MolType != "" {
+		molType := types.MolType(readyArgs.MolType)
+		wf.MolType = &molType
+	}
 
 	ctx := s.reqCtx(req)
 	issues, err := store.GetReadyWork(ctx, wf)