PhpStorm only stopping at break points inside of index.php

PhpStorm was working great until I created a new project, and then went back to my working project. The issue is the only break points it appears to act on are the points inside of the index.php file. Even when I "step into" the object it does not go to the other files being called.

If I set it to "break at first line in PHP scripts" it will stop at the first line of index.php, as well as any break points inside of index.php, it will just never go to any file outside of index.php.

I am using a remote server and the Xdebug Chrome Extension.

I must have changed a setting somewhere, but I can't figure out which one. Please let me know if you have any thoughts.

Thanks!