don't think of it as a Jeep, or a truck. try to think of it as you now own a classic car. for perspective, I bought my first MJ in 1997. a 28 year old car at that time would be the 69 Camaro.
the build I would do with it (note the focus on replacing the ancient rubber bits):
TJ Canyon rims (8" wide and has stock backspacing)
2" budget boost lift (pucks up front, chevy drop shackles out back)
WJ control arms (they have a bend for tire clearance plus you can buy them new to get rid of your 30 year old bushings)
YJ front brake lines (they are longer than MJ lines and yours are now 30 years old and should likely be replaced)
all sorts of fullsize trucks have a longer rear line to do the same
and then I'd leave it alone and focus on the other 28 year old items that likely should be replaced so the truck is reliable. (cooling parts, rubber seals, grounds, battery cables, etc) see the link in my sig for all sorts of how-tos. also this link: