Don't count host permission changes for v2 apps as a permission increase.

chrome/browser/extensions/extension_service.cc

 // Copyright (c) 2013 The Chromium Authors. All rights reserved.
 // Use of this source code is governed by a BSD-style license that can be
 // found in the LICENSE file.
 
 #include "chrome/browser/extensions/extension_service.h"
 
 #include <algorithm>
 #include <iterator>
 #include <set>
 
@@ skipping 2135 matching lines @@
     // hasn't been initialized yet.
     scoped_refptr<PermissionSet> granted_permissions =
         extension_prefs_->GetGrantedPermissions(extension->id());
     CHECK(granted_permissions.get());
 
     // Here, we check if an extension's privileges have increased in a manner
     // that requires the user's approval. This could occur because the browser
     // upgraded and recognized additional privileges, or an extension upgrades
     // to a version that requires additional privileges.
     is_privilege_increase = granted_permissions->HasLessPrivilegesThan(
-        extension->GetActivePermissions().get());
+        extension->GetActivePermissions().get(), extension->GetType());
   }
 
   if (is_extension_upgrade) {
     // If the extension was already disabled, suppress any alerts for becoming
     // disabled on permissions increase.
     bool previously_disabled =
         extension_prefs_->IsExtensionDisabled(extension->id());
     // Legacy disabled extensions do not have a disable reason. Infer that if
     // there was no permission increase, it was likely disabled by the user.
     if (previously_disabled && disable_reasons == Extension::DISABLE_NONE &&
@@ skipping 895 matching lines @@
 }
 
 void ExtensionService::AddUpdateObserver(extensions::UpdateObserver* observer) {
   update_observers_.AddObserver(observer);
 }
 
 void ExtensionService::RemoveUpdateObserver(
     extensions::UpdateObserver* observer) {
   update_observers_.RemoveObserver(observer);
 }