Login 403. Hit with SA-CORE-2014-005
Okay, here is how I did it. Hopefully it will help someone else. After uploading the new drupal core, I went to the settings.php and set the $update_free_access = TRUE;. This will allow you to apply the update without being logged in by going to site.com/update.php.

Once that was done, in the database, I truncated the cache tables and I was able to log in and fix everything.

Hope this helps.