Charlton, since it's sunday I've got some reading for you
http://www.supraforums.com/forum/showthread.php?444569-Stock-twins-replacement-upgrade-Hybrid-GT28R-s/page99
If I were you I would read through this thread, especially the last few pages. Also look up the project thread from beezupra.
AFAIK he has a very simple setup without a standalone (AFC). There are also several j-spec cars in the same thread. Not sure if you're a member on SF, but it's worth it imo.
Send a pm to Stu Hagen with all your questions about hybrids. No one comes close to his experience when it comes to hybrid/stock TT's.
Good luck!