I think there is a slight difference in the 2x4 vs 4x4 in height due to the T-Case clearance.
Nah, that isn't the case. Think about it...the cab front uppers & rad support uppers are the same 2wd & 4x4, the beds are all the same sitting on the frame, the cab bottom where the mounts go are all the same & the bodylines all line up.
What is different is where the crossmember is in the frame rails. In the 4x4's it's lower to make room for the taller bushings that sag more

I checked this out a while back...A friend had bought a nice 2wd 3/4 ton truck & I had a complete but kinda - no, correction

a really rusty frame (trans, T-case & shafts) we were going to put the front 4x4 brackets on the nice frame & a 2" block in the rear. Part of my figuring was: "Why are these bushings different?" The outcome, it must have been to try to eliminate vibration under the people in the seat from the transfer case...it serves no other purpose. If the crossmember was moved up on a 4x4 frame to the placement of the 2wd crossmember, one could buy a 2wd bushing kit & everything would be the same & it wouldn't sag in a years time. Or in the case of what we were planning: Do nothing to the crossmember & use all of the 2wd bushings.
He sold the truck & we never did the swap...the guy that bought it did the conventional frame swap, however he threw away a MUCH better frame than he used...which was the basis of my/our thinking. Lorne