diff --git a/packages/agent-cli/README.md b/packages/agent-cli/README.md
index 277dd96a441e..ba5f8db963d5 100644
--- a/packages/agent-cli/README.md
+++ b/packages/agent-cli/README.md
@@ -17,8 +17,16 @@ Use this command in your repository:
 npx @db-ux/agent-cli
 ```
 
+Or with pnpm:
+
+```shell
+pnpm exec @db-ux/agent-cli
+```
+
 The DB UX Design System documentation will be added to (or replaced in subsequent runs, e.g. after a DB UX Design System update) in the file `.github/copilot-instructions.md` (if this file does not yet exist in your codebase, it will be created).
 
+**Note:** The tool works with all package managers (npm, yarn, pnpm) and correctly handles symlinked packages in pnpm's node_modules structure.
+
 ### Advanced Usage
 
 You can also change the root path where the tool should check for `node_modules`:
diff --git a/packages/agent-cli/src/copilot/index.ts b/packages/agent-cli/src/copilot/index.ts
index a542497034e3..91bad3da4c85 100644
--- a/packages/agent-cli/src/copilot/index.ts
+++ b/packages/agent-cli/src/copilot/index.ts
@@ -13,14 +13,21 @@ function findAllNodeModulesDirectories(
 		.readdirSync(directory, { withFileTypes: true })
 		.sort((a, b) => a.name.localeCompare(b.name, 'en'));
 	for (const entry of entries) {
-		if (entry.isDirectory()) {
+		const fullPath = path.join(directory, entry.name);
+		// Use statSync to follow symlinks (important for pnpm compatibility)
+		let isDirectory = false;
+		try {
+			isDirectory = fs.statSync(fullPath).isDirectory();
+		} catch {
+			// Skip entries that can't be accessed
+			continue;
+		}
+
+		if (isDirectory) {
 			if (entry.name === 'node_modules') {
-				found.push(path.join(directory, entry.name));
+				found.push(fullPath);
 			} else if (!entry.name.startsWith('.')) {
-				findAllNodeModulesDirectories(
-					path.join(directory, entry.name),
-					found
-				);
+				findAllNodeModulesDirectories(fullPath, found);
 			}
 		}
 	}
@@ -54,10 +61,19 @@ export const generateCopilot = (rootPath: string) => {
 				withFileTypes: true
 			});
 			for (const package_ of packages) {
-				if (package_.isDirectory()) {
+				const packagePath = path.join(databaseUxPath, package_.name);
+				// Use statSync to follow symlinks (important for pnpm compatibility)
+				let isDirectory = false;
+				try {
+					isDirectory = fs.statSync(packagePath).isDirectory();
+				} catch {
+					// Skip entries that can't be accessed
+					continue;
+				}
+
+				if (isDirectory) {
 					const instructionsPath = path.join(
-						databaseUxPath,
-						package_.name,
+						packagePath,
 						'agent',
 						'_instructions.md'
 					);
@@ -65,7 +81,7 @@ export const generateCopilot = (rootPath: string) => {
 						let content = fs.readFileSync(instructionsPath, 'utf8');
 						const relativePath = path.relative(
 							rootPath,
-							path.join(databaseUxPath, package_.name)
+							packagePath
 						);
 						content = content
 							.replaceAll(
diff --git a/packages/agent-cli/test/__snapshots__/index.spec.ts.snap b/packages/agent-cli/test/__snapshots__/index.spec.ts.snap
index 0bc5aa77a473..936337b1982e 100644
--- a/packages/agent-cli/test/__snapshots__/index.spec.ts.snap
+++ b/packages/agent-cli/test/__snapshots__/index.spec.ts.snap
@@ -5,11 +5,11 @@ exports[`default > check if docs are created 1`] = `
 --- START: DB UX Copilot Instructions – do not edit below ---
 
 # @db-ux/components
-- use y for frontend/node_modules/@db-ux/components/test.md
+- use y for node_modules/@db-ux/components/test.md
 
 
 # @db-ux/foundations
-- use x for frontend/node_modules/@db-ux/foundations/test.md
+- use x for node_modules/@db-ux/foundations/test.md
 
 
 --- END: DB UX Copilot Instructions – do not edit above ---
diff --git a/packages/agent-cli/test/frontend/.github/copilot-instructions.md b/packages/agent-cli/test/frontend/.github/copilot-instructions.md
new file mode 100644
index 000000000000..b1ea3d44b9cd
--- /dev/null
+++ b/packages/agent-cli/test/frontend/.github/copilot-instructions.md
@@ -0,0 +1,13 @@
+--- START: DB UX Copilot Instructions – do not edit below ---
+
+# @db-ux/components
+- use y for node_modules/@db-ux/components/test.md
+
+
+# @db-ux/foundations
+- use x for node_modules/@db-ux/foundations/test.md
+
+
+---
+
+END: DB UX Copilot Instructions – do not edit above ---
diff --git a/packages/agent-cli/test/index.spec.ts b/packages/agent-cli/test/index.spec.ts
index 55bf527f84d1..2459380c22d9 100644
--- a/packages/agent-cli/test/index.spec.ts
+++ b/packages/agent-cli/test/index.spec.ts
@@ -6,10 +6,26 @@ import { generateCopilot } from '../src/copilot';
 describe('default', () => {
 	test('check if docs are created', async () => {
 		const copilotFile = path.resolve(
-			'test/.github/copilot-instructions.md'
+			'test/frontend/.github/copilot-instructions.md'
 		);
-		generateCopilot('test');
+		generateCopilot('test/frontend');
 
 		expect(fs.readFileSync(copilotFile).toString()).toMatchSnapshot();
 	});
+
+	test('check if docs are created from pnpm symlinked packages', async () => {
+		const copilotFile = path.resolve(
+			'test/pnpm-test/.github/copilot-instructions.md'
+		);
+		generateCopilot('test/pnpm-test');
+
+		const content = fs.readFileSync(copilotFile).toString();
+
+		// Verify that the symlinked package was detected and processed
+		expect(content).toContain('test-symlink-package');
+		expect(content).toContain('Symlinked Package Instructions');
+		expect(content).toContain(
+			'This is a test package accessed via symlink'
+		);
+	});
 });
diff --git a/packages/agent-cli/test/pnpm-test/.github/copilot-instructions.md b/packages/agent-cli/test/pnpm-test/.github/copilot-instructions.md
new file mode 100644
index 000000000000..993cc9497e80
--- /dev/null
+++ b/packages/agent-cli/test/pnpm-test/.github/copilot-instructions.md
@@ -0,0 +1,11 @@
+--- START: DB UX Copilot Instructions – do not edit below ---
+
+# @db-ux/test-symlink-package
+# Symlinked Package Instructions
+
+This is a test package accessed via symlink (simulating pnpm structure).
+
+
+---
+
+END: DB UX Copilot Instructions – do not edit above ---
diff --git a/packages/agent-cli/test/pnpm-test/.pnpm/@db-ux+test-symlink-package@1.0.0/node_modules/@db-ux/test-symlink-package/agent/_instructions.md b/packages/agent-cli/test/pnpm-test/.pnpm/@db-ux+test-symlink-package@1.0.0/node_modules/@db-ux/test-symlink-package/agent/_instructions.md
new file mode 100644
index 000000000000..d02b4f770673
--- /dev/null
+++ b/packages/agent-cli/test/pnpm-test/.pnpm/@db-ux+test-symlink-package@1.0.0/node_modules/@db-ux/test-symlink-package/agent/_instructions.md
@@ -0,0 +1,3 @@
+# Symlinked Package Instructions
+
+This is a test package accessed via symlink (simulating pnpm structure).
diff --git a/packages/agent-cli/test/pnpm-test/node_modules/@db-ux/test-symlink-package b/packages/agent-cli/test/pnpm-test/node_modules/@db-ux/test-symlink-package
new file mode 120000
index 000000000000..36541b3a6888
--- /dev/null
+++ b/packages/agent-cli/test/pnpm-test/node_modules/@db-ux/test-symlink-package
@@ -0,0 +1 @@
+../../.pnpm/@db-ux+test-symlink-package@1.0.0/node_modules/@db-ux/test-symlink-package
\ No newline at end of file