If you build up an FX application (Scene Builder is an example but with any FX stage it's the same) and run it you face two issues on Mac:
- if you minimize the window and left click the corresponding icon in the dock you can't resume the window (of course I assume the user has checked the option "Minimize windows to application icon" in Dock options).
- if you minimize the window and right click the corresponding icon in the dock the menu that pops-up doesn't contain one row per window of your process.

Doing exactly the same with a Java AWT app doesn't show up the issues listed above.
So I guess there's some support missing for now in FX, right ?
Could it be something that will come with JDK 7 U4 ?

By FX / AWT application for Mac I mean a basic dmg bundle organized as a Java app (https://developer.apple.com/library/mac/#documentation/Java/Reference/Java_InfoplistRef/Articles/JavaDictionaryInfo.plistKeys.html).