diff --git a/package.json b/package.json
index 62b14fe..c22848f 100644
--- a/package.json
+++ b/package.json
@@ -63,6 +63,7 @@
     "rimraf": "^5.0.10",
     "simple-git-hooks": "^2.11.1",
     "tsx": "^4.19.1",
-    "typescript": "^5.6.2"
+    "typescript": "^5.6.2",
+    "yaml": "^2.5.1"
   }
 }
diff --git a/pnpm-lock.yaml b/pnpm-lock.yaml
index a6c64d8..0ced061 100644
--- a/pnpm-lock.yaml
+++ b/pnpm-lock.yaml
@@ -63,6 +63,9 @@ importers:
       typescript:
         specifier: ^5.6.2
         version: 5.6.2
+      yaml:
+        specifier: ^2.5.1
+        version: 2.5.1
 
 packages:
 
diff --git a/tests/vue-macros.ts b/tests/vue-macros.ts
index 5af7c8a..2be9827 100644
--- a/tests/vue-macros.ts
+++ b/tests/vue-macros.ts
@@ -1,13 +1,27 @@
 import { runInRepo } from '../utils.ts'
-import { RunOptions } from '../types.ts'
+import { Overrides, RunOptions } from '../types.ts'
+import YAML from 'yaml'
 
 export async function test(options: RunOptions) {
+	const overrideVueVersion = '@^3'
 	await runInRepo({
 		...options,
 		repo: 'vue-macros/vue-macros',
 		branch: 'main',
 		build: 'build',
 		test: ['test:ecosystem'],
-		overrideVueVersion: '@^3',
+		overrideVueVersion,
+		patchFiles: {
+			'pnpm-workspace.yaml': (content: string, overrides: Overrides) => {
+				const data = YAML.parse(content)
+				Object.keys(overrides).forEach((key) => {
+					const pkgName = key.replace(overrideVueVersion, '')
+					if (data.catalog[pkgName]) {
+						data.catalog[pkgName] = overrides[key]
+					}
+				})
+				return YAML.stringify(data)
+			},
+		},
 	})
 }
diff --git a/types.d.ts b/types.d.ts
index 0b71219..298daaa 100644
--- a/types.d.ts
+++ b/types.d.ts
@@ -23,7 +23,7 @@ export interface RunOptions {
 	beforeInstall?: Task | Task[]
 	beforeBuild?: Task | Task[]
 	beforeTest?: Task | Task[]
-	patchFiles?: Record<string, (content: string) => string>
+	patchFiles?: Record<string, (content: string, overrides: Overrides) => string>
 }
 
 type Task = string | { script: string; args?: string[] } | (() => Promise<any>)
diff --git a/utils.ts b/utils.ts
index 516789a..0372e1e 100644
--- a/utils.ts
+++ b/utils.ts
@@ -267,16 +267,6 @@ export async function runInRepo(options: RunOptions & RepoOptions) {
 		)
 	}
 
-	if (patchFiles) {
-		for (const fileName in patchFiles) {
-			const filePath = path.resolve(dir, fileName)
-			const patchFn = patchFiles[fileName]
-			const content = fs.readFileSync(filePath, 'utf-8')
-			fs.writeFileSync(filePath, patchFn(content))
-			console.log(`patched file: ${fileName}`)
-		}
-	}
-
 	const agent = options.agent
 	const beforeInstallCommand = toCommand(beforeInstall, agent)
 	const beforeBuildCommand = toCommand(beforeBuild, agent)
@@ -325,6 +315,17 @@ export async function runInRepo(options: RunOptions & RepoOptions) {
 			overrides[pkg.name] ||= pkg.hashedVersion
 		}
 	}
+
+	if (patchFiles) {
+		for (const fileName in patchFiles) {
+			const filePath = path.resolve(dir, fileName)
+			const patchFn = patchFiles[fileName]
+			const content = fs.readFileSync(filePath, 'utf-8')
+			fs.writeFileSync(filePath, patchFn(content, overrides))
+			console.log(`patched file: ${fileName}`)
+		}
+	}
+
 	await applyPackageOverrides(dir, pkg, overrides)
 
 	await beforeBuildCommand?.(pkg.scripts)