Update Nginx + Varnish + Apache breaks

After the last update, we installed PHP-FPM and rebuilt the webservers but apache woudn't start.
It expected connections on ports 80 and 443 (occupied by Nginx), when I disabled the ssl.conf and changed the default port to 8181, all our hosted sites load the "Welcome" page.
The upgrade deleted all the vhost files, and even after trying to generate those again from the WebServers main/domain conf, it still wouldn't work.

Any feedback is greatly appreciated.
I don't wan't to hate on the update because I know it made the system a lot more flexible and fast, but I just went through hell trying to keep out customers calm today.

I had similar problem. My solution is to switch to apache only, reboot than switch again to apache nginx varnish