@jaymzwise
There is a very limited option listed here:
http://sourceforge.net/projects/pifba/files/
Which is to use the DisplayEffect option.
Instead you could use the fba-libretro option which is used with RetroArch
https://github.com/RetroPie/RetroPie-Setup/wiki/FinalBurn-Alpha
Although it has fairly poor performance on a Pi1.
