diff --git a/packages/@ngtools/webpack/src/transformers/export_ngfactory.spec.ts b/packages/@ngtools/webpack/src/transformers/export_ngfactory.spec.ts
index 8477143fc2dc..6ee8aa9483f5 100644
--- a/packages/@ngtools/webpack/src/transformers/export_ngfactory.spec.ts
+++ b/packages/@ngtools/webpack/src/transformers/export_ngfactory.spec.ts
@@ -5,8 +5,8 @@ import { transformTypescript } from './ast_helpers';
 import { exportNgFactory } from './export_ngfactory';
 
 describe('@ngtools/webpack transformers', () => {
-  describe('replace_resources', () => {
-    it('should replace resources', () => {
+  describe('export_ngfactory', () => {
+    it('should export the ngfactory', () => {
       const input = stripIndent`
         export { AppModule } from './app/app.module';
       `;
@@ -15,8 +15,24 @@ describe('@ngtools/webpack transformers', () => {
         export { AppModule } from './app/app.module';
       `;
 
-      const transformOpsCb = (sourceFile: ts.SourceFile) =>
-        exportNgFactory(sourceFile, { path: '/app.module', className: 'AppModule' });
+      const transformOpsCb = (sourceFile: ts.SourceFile) => exportNgFactory(sourceFile,
+        { path: '/project/src/app/app.module', className: 'AppModule' });
+      const result = transformTypescript(input, transformOpsCb);
+
+      expect(oneLine`${result}`).toEqual(oneLine`${output}`);
+    });
+
+    it('should export the ngfactory when there is a barrel file', () => {
+      const input = stripIndent`
+        export { AppModule } from './app';
+      `;
+      const output = stripIndent`
+        export { AppModuleNgFactory } from "./app/app.module.ngfactory";
+        export { AppModule } from './app';
+      `;
+
+      const transformOpsCb = (sourceFile: ts.SourceFile) => exportNgFactory(sourceFile,
+        { path: '/project/src/app/app.module', className: 'AppModule' });
       const result = transformTypescript(input, transformOpsCb);
 
       expect(oneLine`${result}`).toEqual(oneLine`${output}`);
diff --git a/packages/@ngtools/webpack/src/transformers/export_ngfactory.ts b/packages/@ngtools/webpack/src/transformers/export_ngfactory.ts
index 4b46545d91ec..828f36348cb9 100644
--- a/packages/@ngtools/webpack/src/transformers/export_ngfactory.ts
+++ b/packages/@ngtools/webpack/src/transformers/export_ngfactory.ts
@@ -1,5 +1,6 @@
 // @ignoreDep typescript
 import * as ts from 'typescript';
+import { relative, dirname } from 'path';
 
 import { findAstNodes, getFirstNode } from './ast_helpers';
 import { TransformOperation, AddNodeOperation } from './make_transform';
@@ -19,6 +20,9 @@ export function exportNgFactory(
     return [];
   }
 
+  const relativeEntryModulePath = relative(dirname(sourceFile.fileName), entryModule.path);
+  const normalizedEntryModulePath = `./${relativeEntryModulePath}`.replace(/\\/g, '/');
+
   // Get the module path from the import.
   let modulePath: string;
   entryModuleIdentifiers.forEach((entryModuleIdentifier) => {
@@ -37,7 +41,7 @@ export function exportNgFactory(
 
     // Add the transform operations.
     const factoryClassName = entryModule.className + 'NgFactory';
-    const factoryModulePath = modulePath + '.ngfactory';
+    const factoryModulePath = normalizedEntryModulePath + '.ngfactory';
 
     const namedExports = ts.createNamedExports([ts.createExportSpecifier(undefined,
       ts.createIdentifier(factoryClassName))]);
diff --git a/packages/@ngtools/webpack/src/transformers/replace_bootstrap.spec.ts b/packages/@ngtools/webpack/src/transformers/replace_bootstrap.spec.ts
index b353d2d479fc..2a1a828cd6ca 100644
--- a/packages/@ngtools/webpack/src/transformers/replace_bootstrap.spec.ts
+++ b/packages/@ngtools/webpack/src/transformers/replace_bootstrap.spec.ts
@@ -36,8 +36,45 @@ describe('@ngtools/webpack transformers', () => {
       `;
       // tslint:enable:max-line-length
 
-      const transformOpsCb = (sourceFile: ts.SourceFile) =>
-        replaceBootstrap(sourceFile, { path: '/app.module', className: 'AppModule' });
+      const transformOpsCb = (sourceFile: ts.SourceFile) => replaceBootstrap(sourceFile,
+        { path: '/project/src/app/app.module', className: 'AppModule' });
+      const result = transformTypescript(input, transformOpsCb);
+
+      expect(oneLine`${result}`).toEqual(oneLine`${output}`);
+    });
+
+    it('should replace bootstrap when barrel files are used', () => {
+      const input = stripIndent`
+        import { enableProdMode } from '@angular/core';
+        import { platformBrowserDynamic } from '@angular/platform-browser-dynamic';
+
+        import { AppModule } from './app';
+        import { environment } from './environments/environment';
+
+        if (environment.production) {
+          enableProdMode();
+        }
+
+        platformBrowserDynamic().bootstrapModule(AppModule);
+      `;
+
+      // tslint:disable:max-line-length
+      const output = stripIndent`
+        import { enableProdMode } from '@angular/core';
+        import { environment } from './environments/environment';
+
+        import * as __NgCli_bootstrap_1 from "./app/app.module.ngfactory";
+        import * as __NgCli_bootstrap_2 from "@angular/platform-browser";
+
+        if (environment.production) {
+          enableProdMode();
+        }
+        __NgCli_bootstrap_2.platformBrowser().bootstrapModuleFactory(__NgCli_bootstrap_1.AppModuleNgFactory);
+      `;
+      // tslint:enable:max-line-length
+
+      const transformOpsCb = (sourceFile: ts.SourceFile) => replaceBootstrap(sourceFile,
+        { path: '/project/src/app/app.module', className: 'AppModule' });
       const result = transformTypescript(input, transformOpsCb);
 
       expect(oneLine`${result}`).toEqual(oneLine`${output}`);
diff --git a/packages/@ngtools/webpack/src/transformers/replace_bootstrap.ts b/packages/@ngtools/webpack/src/transformers/replace_bootstrap.ts
index 56aef44705b3..ec04db66ac46 100644
--- a/packages/@ngtools/webpack/src/transformers/replace_bootstrap.ts
+++ b/packages/@ngtools/webpack/src/transformers/replace_bootstrap.ts
@@ -1,5 +1,6 @@
 // @ignoreDep typescript
 import * as ts from 'typescript';
+import { relative, dirname } from 'path';
 
 import { findAstNodes } from './ast_helpers';
 import { insertStarImport } from './insert_import';
@@ -16,7 +17,7 @@ export function replaceBootstrap(
 ): TransformOperation[] {
   const ops: TransformOperation[] = [];
 
-  // Find all identifiers using the entry module class name.
+  // Find all identifiers.
   const entryModuleIdentifiers = findAstNodes<ts.Identifier>(null, sourceFile,
     ts.SyntaxKind.Identifier, true)
     .filter(identifier => identifier.getText() === entryModule.className);
@@ -25,27 +26,8 @@ export function replaceBootstrap(
     return [];
   }
 
-  // Get the module path from the import.
-  let modulePath: string;
-  entryModuleIdentifiers.forEach((entryModuleIdentifier) => {
-    // TODO: only supports `import {A, B, C} from 'modulePath'` atm, add other import support later.
-    if (entryModuleIdentifier.parent.kind !== ts.SyntaxKind.ImportSpecifier) {
-      return;
-    }
-
-    const importSpec = entryModuleIdentifier.parent as ts.ImportSpecifier;
-    const moduleSpecifier = importSpec.parent.parent.parent.moduleSpecifier;
-
-    if (moduleSpecifier.kind !== ts.SyntaxKind.StringLiteral) {
-      return;
-    }
-
-    modulePath = (moduleSpecifier as ts.StringLiteral).text;
-  });
-
-  if (!modulePath) {
-    return [];
-  }
+  const relativeEntryModulePath = relative(dirname(sourceFile.fileName), entryModule.path);
+  const normalizedEntryModulePath = `./${relativeEntryModulePath}`.replace(/\\/g, '/');
 
   // Find the bootstrap calls.
   const removedEntryModuleIdentifiers: ts.Identifier[] = [];
@@ -89,7 +71,7 @@ export function replaceBootstrap(
 
     // Add the transform operations.
     const factoryClassName = entryModule.className + 'NgFactory';
-    const factoryModulePath = modulePath + '.ngfactory';
+    const factoryModulePath = normalizedEntryModulePath + '.ngfactory';
     ops.push(
       // Replace the entry module import.
       ...insertStarImport(sourceFile, idNgFactory, factoryModulePath),