Fix navigateTree API: add missing type updates, handler passthrough, and docs

- Update ExtensionCommandContext.navigateTree type signature
- Pass new options through in print-mode and rpc-mode handlers
- Update docs/extensions.md, docs/sdk.md, docs/tree.md
- Add changelog entry

packages/coding-agent/src/modes/print-mode.ts

@@ -95,7 +95,12 @@ export async function runPrintMode(session: AgentSession, options: PrintModeOpti
 					return { cancelled: result.cancelled };
 				},
 				navigateTree: async (targetId, options) => {
-					const result = await session.navigateTree(targetId, { summarize: options?.summarize });
+					const result = await session.navigateTree(targetId, {
+						summarize: options?.summarize,
+						customInstructions: options?.customInstructions,
+						replaceInstructions: options?.replaceInstructions,
+						label: options?.label,
+					});
 					return { cancelled: result.cancelled };
 				},
 			},

packages/coding-agent/src/modes/rpc/rpc-mode.ts

@@ -311,7 +311,12 @@ export async function runRpcMode(session: AgentSession): Promise<never> {
 					return { cancelled: result.cancelled };
 				},
 				navigateTree: async (targetId, options) => {
-					const result = await session.navigateTree(targetId, { summarize: options?.summarize });
+					const result = await session.navigateTree(targetId, {
+						summarize: options?.summarize,
+						customInstructions: options?.customInstructions,
+						replaceInstructions: options?.replaceInstructions,
+						label: options?.label,
+					});
 					return { cancelled: result.cancelled };
 				},
 			},