diff --git a/.changeset/fruity-corners-dance.md b/.changeset/fruity-corners-dance.md
new file mode 100644
index 0000000000..e6ffe22430
--- /dev/null
+++ b/.changeset/fruity-corners-dance.md
@@ -0,0 +1,6 @@
+---
+"@pnpm/core": patch
+pnpm: patch
+---
+
+When installing different dependency packages, should retain the `ignoredBuilds` field in the `.modules.yaml` file [#9240](https://github.com/pnpm/pnpm/issues/9240).
diff --git a/pkg-manager/core/src/install/index.ts b/pkg-manager/core/src/install/index.ts
index 0056c35c38..4cea46c763 100644
--- a/pkg-manager/core/src/install/index.ts
+++ b/pkg-manager/core/src/install/index.ts
@@ -10,6 +10,7 @@ import {
   WANTED_LOCKFILE,
 } from '@pnpm/constants'
 import {
+  ignoredScriptsLogger,
   stageLogger,
   summaryLogger,
 } from '@pnpm/core-loggers'
@@ -1224,6 +1225,10 @@ const _installInContext: InstallFunction = async (projects, ctx, opts) => {
           unsafePerm: opts.unsafePerm,
           userAgent: opts.userAgent,
         })).ignoredBuilds
+        if (ignoredBuilds == null && ctx.modulesFile?.ignoredBuilds?.length) {
+          ignoredBuilds = ctx.modulesFile.ignoredBuilds
+          ignoredScriptsLogger.debug({ packageNames: ignoredBuilds })
+        }
       }
     }