diff --git a/src/Composer/ComposerizeDrupalCommand.php b/src/Composer/ComposerizeDrupalCommand.php
index 446cacc..2e8eba5 100644
--- a/src/Composer/ComposerizeDrupalCommand.php
+++ b/src/Composer/ComposerizeDrupalCommand.php
@@ -255,9 +255,13 @@ protected function mergeTemplateGitignore()
     protected function requireDrupalCore($root_composer_json)
     {
         $version_constraint = DrupalInspector::getVersionConstraint($this->drupalCoreVersion, $this->input->getOption('exact-versions'));
-        $root_composer_json->require->{'drupal/core'} = $version_constraint;
+        $root_composer_json->require->{'drupal/core-recommended'} = $version_constraint;
         $this->getIO()
-            ->write("<info>Added drupal/core $version_constraint to requirements.</info>");
+            ->write("<info>Added drupal/core-recommended $version_constraint to requirements.</info>");
+        // Adding drupal/core-composer-scaffold with the same drupal core version.
+        $root_composer_json->require->{'drupal/core-composer-scaffold'} = $version_constraint;
+        $this->getIO()
+            ->write("<info>Added drupal/core-composer-scaffold $version_constraint to requirements.</info>");
     }
 
     /**
@@ -329,7 +333,7 @@ protected function removeAllComposerFiles()
         $finder = new Finder();
         $finder->in($this->baseDir)
             ->files()
-            ->name('/^composer\.(lock|json)$/');
+            ->name('/(^composer\.(lock|json)$)|autoload.php/');
         $files = iterator_to_array($finder);
         $this->fs->remove($files);
     }
diff --git a/src/Utility/ComposerJsonManipulator.php b/src/Utility/ComposerJsonManipulator.php
index 3201972..3912e2d 100644
--- a/src/Utility/ComposerJsonManipulator.php
+++ b/src/Utility/ComposerJsonManipulator.php
@@ -20,10 +20,10 @@ public static function processPaths(&$template_composer_json, $drupal_root)
             }
         }
 
-        foreach ($template_composer_json->extra->{'merge-plugin'}->{'include'} as $key => $path) {
-            $processed_path = str_replace('[drupal-root]/', $replacement, $path);
+        foreach ($template_composer_json->extra->{'drupal-scaffold'}->{'locations'} as $key => $path) {
+            $processed_path = str_replace('[drupal-root]', $replacement, $path);
             if ($processed_path != $path) {
-                $template_composer_json->extra->{'merge-plugin'}->{'include'}[$key] = $processed_path;
+                $template_composer_json->extra->{'drupal-scaffold'}->{'locations'}->{$key} = $processed_path;
             }
         }
     }
diff --git a/template.composer.json b/template.composer.json
index 69116da..3bd38dd 100644
--- a/template.composer.json
+++ b/template.composer.json
@@ -22,27 +22,25 @@
   "require": {
     "php": "^5.5.9|>=7.0.8",
     "composer/installers": "^1.2.0",
-    "cweagans/composer-patches": "^1.6.5",
-    "grasmash/drupal-security-warning": "^1.0.0",
-    "oomphinc/composer-installers-extender": "^2.0",
-    "wikimedia/composer-merge-plugin": "^2.0"
+    "cweagans/composer-patches": "^1.6.5"
   },
   "require-dev": {},
   "config": {
     "sort-packages": true,
-    "discard-changes": true,
-    "optimize-autoloader": true
+    "discard-changes": true
   },
   "conflict": {
     "drupal/drupal": "*"
   },
   "extra": {
     "enable-patching": true,
-    "composer-exit-on-patch-failure": true,
-    "patchLevel": {
-      "drupal/core": "-p2"
-    },
+    "composer-exit-on-patch-failure": false,
     "patches": [],
+    "drupal-scaffold": {
+      "locations": {
+        "web-root": "./[drupal-root]"
+      }
+    },
     "installer-types": ["bower-asset", "npm-asset"],
     "installer-paths": {
       "[drupal-root]/core": ["type:drupal-core"],
@@ -54,13 +52,6 @@
       "[drupal-root]/themes/custom/{$name}": ["type:drupal-custom-theme"],
       "[drupal-root]/libraries/{$name}": ["type:drupal-library", "type:bower-asset", "type:npm-asset"],
       "drush/Commands/{$name}": ["type:drupal-drush"]
-    },
-    "merge-plugin": {
-      "include": [
-        "[drupal-root]/modules/custom/*/composer.json"
-      ],
-      "replace": false,
-      "ignore-duplicates": true
     }
   },
   "minimum-stability": "dev",
diff --git a/tests/phpunit/ComposerizeDrupalCommandTest.php b/tests/phpunit/ComposerizeDrupalCommandTest.php
index 8c407f5..c01d86b 100644
--- a/tests/phpunit/ComposerizeDrupalCommandTest.php
+++ b/tests/phpunit/ComposerizeDrupalCommandTest.php
@@ -211,12 +211,12 @@ protected function assertCorrectFileGeneration($relative_drupal_root)
             $composer_json->require->{'drupal/ctools'}
         );
         $this->assertObjectHasAttribute(
-            'drupal/core',
+            'drupal/core-recommended',
             $composer_json->require
         );
         $this->assertEquals(
             "^" . $this->sandboxManager->getDrupalVersion(),
-            $composer_json->require->{'drupal/core'}
+            $composer_json->require->{'drupal/core-recommended'}
         );
 
         // Assert installer paths.
@@ -238,8 +238,5 @@ protected function assertCorrectFileGeneration($relative_drupal_root)
         $this->assertObjectHasAttribute('drupal/ctools', $composer_json->extra->patches);
         $this->assertObjectHasAttribute($patch_relative_path, $composer_json->extra->patches->{"drupal/ctools"});
         $this->assertEquals($patch_relative_path, $composer_json->extra->patches->{"drupal/ctools"}->{$patch_relative_path});
-
-        // Assert merge-plugin.
-        $this->assertContains($relative_drupal_root . "modules/custom/*/composer.json", $composer_json->extra->{'merge-plugin'}->include);
     }
 }