diff --git a/packages/commonjs/src/index.js b/packages/commonjs/src/index.js
index ef3976f3b..1a6abfc37 100644
--- a/packages/commonjs/src/index.js
+++ b/packages/commonjs/src/index.js
@@ -47,6 +47,7 @@ export default function commonjs(options = {}) {
     ignoreGlobal,
     ignoreDynamicRequires,
     requireReturnsDefault: requireReturnsDefaultOption,
+    defaultIsModuleExports: defaultIsModuleExportsOption,
     esmExternals
   } = options;
   const getRequireReturnsDefault =
@@ -60,8 +61,11 @@ export default function commonjs(options = {}) {
       : Array.isArray(esmExternals)
       ? ((esmExternalIds = new Set(esmExternals)), (id) => esmExternalIds.has(id))
       : () => esmExternals;
-  const defaultIsModuleExports =
-    typeof options.defaultIsModuleExports === 'boolean' ? options.defaultIsModuleExports : 'auto';
+  const getDefaultIsModuleExports =
+    typeof defaultIsModuleExportsOption === 'function'
+      ? defaultIsModuleExportsOption
+      : () =>
+          typeof defaultIsModuleExportsOption === 'boolean' ? defaultIsModuleExportsOption : 'auto';
 
   const { dynamicRequireModuleSet, dynamicRequireModuleDirPaths } = getDynamicRequirePaths(
     options.dynamicRequireTargets
@@ -150,7 +154,7 @@ export default function commonjs(options = {}) {
       disableWrap,
       commonDir,
       ast,
-      defaultIsModuleExports
+      getDefaultIsModuleExports(id)
     );
   }
 
diff --git a/packages/commonjs/types/index.d.ts b/packages/commonjs/types/index.d.ts
index 2b0b06797..350d54328 100644
--- a/packages/commonjs/types/index.d.ts
+++ b/packages/commonjs/types/index.d.ts
@@ -2,6 +2,7 @@ import { FilterPattern } from '@rollup/pluginutils';
 import { Plugin } from 'rollup';
 
 type RequireReturnsDefaultOption = boolean | 'auto' | 'preferred' | 'namespace';
+type DefaultIsModuleExportsOption = boolean | 'auto';
 
 interface RollupCommonJSOptions {
   /**
@@ -161,6 +162,13 @@ interface RollupCommonJSOptions {
   requireReturnsDefault?:
     | RequireReturnsDefaultOption
     | ((id: string) => RequireReturnsDefaultOption);
+
+  /**
+   * @default "auto"
+   */
+  defaultIsModuleExports?:
+    | DefaultIsModuleExportsOption
+    | ((id: string) => DefaultIsModuleExportsOption);
   /**
    * Some modules contain dynamic `require` calls, or require modules that
    * contain circular dependencies, which are not handled well by static