you want Fuel Injection for sure.....
mine is still going strong, but I am a bit of a freak for maintenance, I run synthetic oil in the motor, and Syncromesh in the tranny.... I have only minor mods to the motor (4.ol TB, header, minor airbox mod) and have no issues at all.... though I will be the first to admit I do not break land speed records, I am able to cruise at 75 mph..... not sure if I want to go any fater in an SOA YJ on 35's
....Another major factor is gearing, the 5spds came with 4:10's and while that may be OK to get by with 33's, I went to 4:88's and have never looked back.....
If I were to do any more mods, it would be an electric fan, and maybe a cold air intake..... and when it was time for a rebuild I would go to a bit stronger camshaft (Hesco makes a few different options)
Many people will tell you to bypass a 4banger and do a 4.o or even a v-8 swap.... but my bang for the buck is on the 2.5 4cyl.... I can crawl like a bandit with the gears and the 4:1 in the Transfer case, and it does not eat parts!
my 0.02$ .... but I am biased