diff --git a/e2e/__tests__/multiProjectRunner.test.js b/e2e/__tests__/multiProjectRunner.test.js
index 7fc070a53c32..da82fa10235a 100644
--- a/e2e/__tests__/multiProjectRunner.test.js
+++ b/e2e/__tests__/multiProjectRunner.test.js
@@ -497,3 +497,22 @@ describe("doesn't bleed module file extensions resolution with multiple workers"
     expect(stderr).toMatch('PASS project2/__tests__/project2.test.js');
   });
 });
+
+describe('Babel config in individual project works in multi-project', () => {
+  it('Transpiles when running bar individually', () => {
+    const result = runJest('multi-project-babel/bar');
+    expect(result.stderr).toMatch('PASS ./bar.test.js');
+    expect(result.status).toBe(0);
+  });
+  it('Transpiles when running foo individually', () => {
+    const result = runJest('multi-project-babel/foo');
+    expect(result.stderr).toMatch('PASS ./foo.test.js');
+    expect(result.status).toBe(0);
+  });
+  it('Transpiles when running from multiproject', () => {
+    const result = runJest('multi-project-babel');
+    expect(result.stderr).toMatch('PASS bar/bar.test.js');
+    expect(result.stderr).toMatch('PASS foo/foo.test.js');
+    expect(result.status).toBe(0);
+  });
+});
diff --git a/e2e/multi-project-babel/bar/.babelrc.js b/e2e/multi-project-babel/bar/.babelrc.js
new file mode 100644
index 000000000000..6869642766b4
--- /dev/null
+++ b/e2e/multi-project-babel/bar/.babelrc.js
@@ -0,0 +1,3 @@
+module.exports = {
+  presets: ['@babel/preset-flow'],
+};
diff --git a/e2e/multi-project-babel/bar/bar.js b/e2e/multi-project-babel/bar/bar.js
new file mode 100644
index 000000000000..851a12a0a77c
--- /dev/null
+++ b/e2e/multi-project-babel/bar/bar.js
@@ -0,0 +1 @@
+module.exports = (text: string) => text;
diff --git a/e2e/multi-project-babel/bar/bar.test.js b/e2e/multi-project-babel/bar/bar.test.js
new file mode 100644
index 000000000000..922937210429
--- /dev/null
+++ b/e2e/multi-project-babel/bar/bar.test.js
@@ -0,0 +1,6 @@
+// Copyright (c) Facebook, Inc. and its affiliates. All Rights Reserved.
+const bar = require('./bar');
+
+it('Bar transpiles', () => {
+  expect(bar('test')).toBe('test');
+});
diff --git a/e2e/multi-project-babel/bar/package.json b/e2e/multi-project-babel/bar/package.json
new file mode 100644
index 000000000000..0967ef424bce
--- /dev/null
+++ b/e2e/multi-project-babel/bar/package.json
@@ -0,0 +1 @@
+{}
diff --git a/e2e/multi-project-babel/foo/.babelrc.js b/e2e/multi-project-babel/foo/.babelrc.js
new file mode 100644
index 000000000000..6869642766b4
--- /dev/null
+++ b/e2e/multi-project-babel/foo/.babelrc.js
@@ -0,0 +1,3 @@
+module.exports = {
+  presets: ['@babel/preset-flow'],
+};
diff --git a/e2e/multi-project-babel/foo/foo.js b/e2e/multi-project-babel/foo/foo.js
new file mode 100644
index 000000000000..851a12a0a77c
--- /dev/null
+++ b/e2e/multi-project-babel/foo/foo.js
@@ -0,0 +1 @@
+module.exports = (text: string) => text;
diff --git a/e2e/multi-project-babel/foo/foo.test.js b/e2e/multi-project-babel/foo/foo.test.js
new file mode 100644
index 000000000000..929edf4cd0c2
--- /dev/null
+++ b/e2e/multi-project-babel/foo/foo.test.js
@@ -0,0 +1,6 @@
+// Copyright (c) Facebook, Inc. and its affiliates. All Rights Reserved.
+const foo = require('./foo');
+
+it('Foo transpiles', () => {
+  expect(foo('test')).toBe('test');
+});
diff --git a/e2e/multi-project-babel/foo/package.json b/e2e/multi-project-babel/foo/package.json
new file mode 100644
index 000000000000..0967ef424bce
--- /dev/null
+++ b/e2e/multi-project-babel/foo/package.json
@@ -0,0 +1 @@
+{}
diff --git a/e2e/multi-project-babel/package.json b/e2e/multi-project-babel/package.json
new file mode 100644
index 000000000000..0c679cc796ea
--- /dev/null
+++ b/e2e/multi-project-babel/package.json
@@ -0,0 +1,12 @@
+{
+  "jest": {
+    "projects": [
+      {
+        "rootDir": "<rootDir>/foo"
+      },
+      {
+        "rootDir": "<rootDir>/bar"
+      }
+    ]
+  }
+}