I have a 1987 Comanche I am working on building. I found a parts list I am working on and want to make sure it will all work together. This is my first mj build of hopefully several. As I bought the truck it has a stock 4.0 with the ba10 transmission transfer case unknown. The axles are not original they are Dana 44s from ????. It has I think at least a six inch lift now with coil overs and 35 inch super swampers. Ok now for my question... I would like to know if my parts list is going to work with too much major fabrication and if anyone has reasonable suggestions for improvement. 
The parts list: 
Atk 4.7 inline six stroker engine 
AX-15 transmission 
NP-231 transfer case 
Disc brake conversion kit 
Flowmaster exhaust 
Dick cepek mud country tires 
Dick cepek wheels 
Warn front bumper and winch 
Rhino bed liner 
  
The parts i am looking for suggestions: 
Intake 
Water pump and cooling system 
Ignition system 
Steering stabilizer and front end 
Sway bars and sway bar disconnects 
Front and rear lockers 
Other heavy duty drivetrain pieces 
Air system 
Skid plate setup 
Rear bumper and roll bars 
Lighting 
Any other suggestions 
  
Now keep in mind although I would like high torque off road capability I want to keep daily driver use. 
Any help with this is appreciated pictures coming soon