Port design.
The four "basic" 242 castings are 2686 (1987-1990,) 7120 (1991-1995,) 0630 (1996-1998/9,) and 0331 (1999?-2005.)
The increase in power between 1990 and 1991 is largely attributable to the change in design of the intake/exhaust ports between the 2686 head (which is nearly a right-angle into the chamber) and the 7120 (the raised intake ports allowed for a smoother flow into the chamber, reduced pumping losses, and a somewhat higher volumetric efficiency.)
Unfortunately, revisions in design slightly but measureably decreased power output with the 0630 head, and again with the 0331 head.
Depending on what you're trying to do, it's generally understood (although not fully agreed upon,) that the best-breathing top end combination is the 7120 cylinder head with the 99-up WJ intake manifold offering the (arguably) best-flowing intake runners to complement the cylinder head design.
Note that the heads and manifolds are not compatible across the 1990 "line" - without some machine work and modification. Fine here - the later manifolds are better.
If you want to do better than the 7120 head, be ready to call Clifford or HESCO and lay out a bunch of dough for the new aluminum head (and I'd like to know who's casting the thing - it's showed up with several vendors rather quickly, and we beat something like this around 1Q2001 on the "Strokers" board - then I took the info to Mr. Russ Flagle at Indy Cylinder Heads in Indianapolis. I wonder... I don't want royalties or anything - I'd just like to konw if I have another place in Jeep history coming...)
5-90