Please enlighten me as to what makes them so Fucked up, aside from the OPD and possible pcm problems.
The steering box is a German POS. PSC has the best solution but it's expensive.
There are many haters for the 6 speed NSG370, another German gem. My Jeep has had at least 3 owners and the transmission lasted over 100K miles before the known issue with reverse became an issue for me. A kit to fix this issue was developed early on in the TJ/JK lifetimes. So the easiest solutions are to either swap in a 5 speed AX15 or go with a rebuilt NSG370 from a reliable rebuilder with the fix for reverse. I went with a rebuilt NSG370 but can't test it yet due to a shoulder surgery before I got it back together. Not all NSG370s suffer from the issue. Not sure when the reverse fix hit the assembly line.
OPDA AFAIC is a non-issue as long as you deal with it before any significant cam damage occurs. It's a lot easier than a lot of people make it seem to replace the OPDA and keep the original CPS.
The only PCM issues I know of are with the auto transmission. I have no personal experience with them but it seems at least some have had good luck with new/reman PCMs that fix the issue. I don't know how common the issue is.
I'm sure Jerry will chime in with something else but that's all I can think of.
Some other years have issues with cracked heads. I think a cracked exhaust manifold is an issue for some years. So 05/06 is not the only version with issues. I'm sure there are more.