Great write-up! If I ever go to a bigger supercharger I'll be pouring over your pictures for ideas!
I had no problem going to a light weight flywheel (lower rotational mass helps acceleration). Idle might be slightly less even & a heavier duty clutch will engage a bit rougher, but I don't even notice it anymore
Stock Transmission& clutch is ok for up to maybe 160 to 180 hp? Oh! I would upgrade your injectors higher than 20 lbs or else keep boost psi & horsepower low to start! The last thing you want to do is to run lean under boost (pre-detonation can damage engine) I have the same engine as JohnBoy (MM2100 FI) running 14 psi boost & I have 42 lb injectors. That size injector is a little over kill for me (I'm only at about 260 hp). Stock injectors were 18 lb if I remember correctly?, and the Downing Atlanta stage 3 kit used 28 lb injectors? Here's a sample calculator:
http://fuelinjectorclinic.com/flow-calculator