reverted:
--- b/core/includes/module.inc
+++ a/core/includes/module.inc
@@ -144,7 +144,7 @@
   // For bootstrap modules, attempt to fetch the list from cache if possible.
   // if not fetch only the required information to fire bootstrap hooks
   // in case we are going to serve the page from cache.
+  if ($type == 'bootstrap') {
-  if ($type === 'bootstrap') {
     if (isset($lists['bootstrap'])) {
       return $lists['bootstrap'];
     }
@@ -188,7 +188,7 @@
         // Build a list of all enabled modules.
         $lists['module_enabled'][$name] = $name;
         // Build a list of filenames so drupal_get_filename can use it.
+        $lists['filepaths'][] = array(
-        $lists['filepaths'][$name] = array(
           'type' => 'module',
           'name' => $name,
           'filepath' => $module_files[$name],
@@ -215,7 +215,7 @@
         $lists['theme'][$name] = $theme;
         // Build a list of filenames so drupal_get_filename can use it.
         if (isset($enabled_themes[$name])) {
+          $lists['filepaths'][] = array(
-          $lists['filepaths'][$name] = array(
             'type' => 'theme',
             'name' => $name,
             'filepath' => $theme->filename,
@@ -249,8 +249,6 @@
         // Set the theme engine prefix.
         $lists['theme'][$key]->prefix = ($lists['theme'][$key]->info['engine'] == 'theme') ? $base_key : $lists['theme'][$key]->info['engine'];
       }
-      // Save a little space by stripping out the keys from the file paths.
-      $lists['filepaths'] = array_values($lists['filepaths']);
       cache('bootstrap')->set('system_list', $lists);
     }
     // To avoid a separate database lookup for the filepath, prime the
only in patch2:
unchanged:
--- a/index.php
+++ b/index.php
@@ -28,7 +28,7 @@
 drupal_bootstrap(DRUPAL_BOOTSTRAP_CODE);
 
 // @todo Figure out how best to handle the Kernel constructor parameters.
-$kernel = new DrupalKernel('prod', FALSE);
+$kernel = new DrupalKernel('prod', FALSE, NULL, cache('bootstrap'));
 
 // Create a request object from the HTTPFoundation.
 $request = Request::createFromGlobals();