refactor: remove bd mol catalog in favor of bd formula list (bd-ctmg)

- Delete mol_catalog.go (duplicate functionality)
- Update mol.go help text to point to bd formula list
- Update CLI_REFERENCE.md and MOLECULES.md docs
- Update deprecated template.go references

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

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

cmd/bd/template.go

@@ -60,7 +60,7 @@ var templateCmd = &cobra.Command{
 	Use:        "template",
 	GroupID:    "setup",
 	Short:      "Manage issue templates",
-	Deprecated: "use 'bd mol' instead (mol catalog, mol show, mol bond)",
+	Deprecated: "use 'bd mol' instead (formula list, mol show, mol bond)",
 	Long: `Manage Beads templates for creating issue hierarchies.
 
 Templates are epics with the "template" label. They can have child issues
@@ -78,7 +78,7 @@ To use a template:
 var templateListCmd = &cobra.Command{
 	Use:        "list",
 	Short:      "List available templates",
-	Deprecated: "use 'bd mol catalog' instead",
+	Deprecated: "use 'bd formula list' instead",
 	Run: func(cmd *cobra.Command, args []string) {
 		ctx := rootCtx
 		var beadsTemplates []*types.Issue