Drivetrain- Engine, clutch, transmission, transfer case, drive shafts

HUBS- All T100's came with ADD, not automatic hubs. No extra kit is necessary to bolt on some manual hubs. Hubs from '86-95 Toy trucks & 4runners will bolt right on, as will aftermarket Warn, etc. OEM Aisin hubs are arguably the best (strongest, smallest, won't come loose) and can be found used for about $50/pair.
ORC and 4x4Wire both have good articles showing how to rebuild the Aisin hubs.

Switching from ADD to manual (freewheeling) hubs:
http://www.4x4wire.com/forums/showflat.php?Cat=&Board=UBB78&Number=225037

CLUTCH-. Too short clutch hose, will leak
(remedy- replace hose from stealership...warranty)

CLUTCH PEDAL BRACKET- Cracks/failure.
See "Body" section of FAQ.

MANUAL TRANSMISSION- hard to shift or get into first gear.
- See Clutch pedal bracket problem in "Body" section of FAQ.

AUTOMATIC TRANSMISSION FLUSH
- Do-it-yourself procedure: http://www.4x4wire.com/forums/showflat.php?Cat=&Board=UBB78&Number=232123#Post232123

Supercharger-

Exhaust-