I have a 1990 2 door. It's set up pretty mild. 3" lift and 31's. I'd say that if you are going to go more than 4" on the lift you'd be best to go with a long arm kit. I built one for wheeling that had 35's on it with 6" homebrew lift, it'd go just about anywhere. If it's going to be a hunting rig and not wheeling, then I'd stick with a 3" - 4" lift. As for the bumper and rack and all, build it yourself, its a lot cheaper that way.

I would start with a 1992 limited 4 dr. The 92s fixed allot of the little annoying things that Cherokees were known for.
Obviously 4.0 litre.
If you are not into hard core wheeling, stick with a 4 in. or 3 in. lift. no geometry issues to deal with.
Rockrail Sliders or similar side protection "not nerf bar" are an absolute necessity.
410 rear end gears, Dana 44, rear (and fronts if you can find them)
I ran a few different setups, limited slips front and back, ARB air lockers, if I was to do it again for daily driver with offroad capability, I would run limited at both ends for better driveability.
Winch bumper, roof rack, window rain deflectors, air compressor.
Wet Okolee seat covers, cup holder, lol