Kris. I can give you a real world example where that straight MVC with the. pphp if not breaks, then definetly becomes an ugly mess. I use Yii framework as my tool, it has some very nice tools for templating like widgets. Widgets provide a container to put functionalit required by multiple pages and it contains a controller like code and a template. It can and most times will use models and other library stuff to do its work. And all that code is loaded via an autoloader (only templates are loaded localy in a controller method).
As i see it, i will spend a lot of time figuring out if i need to make a .php or a .pphp file. After a few days i will just say to my self "f*** this sh**" and just stick with the .php. My coleague will just stick with .php - he values his time and to him this will be just noise that he ignores because it gives no real benifit, IDE's and editors will ajust in time and reformatting a whole project is just a waste of time. Not to mention frameworks will not follow for a long time because of the BC and big WTF factor.