With FileMaker Server 13.05 now qualified to work on Yosemite I have updated my tutorial (version 1.03 December 30, 2014) to show how to run FileMaker Server on a Mac with Maverick's Server.app 3 or Yosemite's Server.app 4 installed.
I know it is NOT best practices to run FileMaker Server on the same machine as OS X server but necessity being the mother of invention I have created a tutorial to show how to utilize FileMaker Server 13.05 on a Mac with Yosemite's Server.app 4 using the Advanced web app features in the Server.app GUI. In fact, the tutorial also shows to run Kerio Connect and Maxum's Rumpus on the same machine.
In this way you can use FileMaker Server along with Profile Manager, Wiki and Web Services and the config will survive OS X Server 10.9.x 10.10.x upgrades because it is using the Server.app 3 or 4's extensible Web App capabilities.
The tutorial called "Server_App_Reverse_Proxy" can be found in the Tutorials section at the RAIS page: http://rais.precursor.ca