On my version 1.0 SOA MJ 44 I just used the spring plates and shock mounts on top of the springs... using Rusty's 10" travel shox (little to no up travel, great droop) that went quickly into 1.1 with RE 2020 shock mounts welded to the axletubes. Both in "MJ" forward orientation and centered on the H axis and close to square (no inward cant towards the C/L)
It worked well, but the shox were still the bumpstops in 'flex-compression' (tho with 33" just barely kissing the inner fender tub above the framerail...perfect) Droop was great... I am sure those bushings were in a misalign-bind, but it never seemed to hinder trail performance any.
I used no TC drop, a 1" longer DS, and a 1/4"? longer YJ yoke FWIW.
My MJ ax in 6" XJ setup is a work-in-progress... (butch but functional) for v1.0 I hung those RE perches a'la Max Johnson in R-ds & F-ps like OEM XJ, on a H axis roughly even with the top of the tube, and retained the OEM BPs. The intent was to have the shox pivot on an axis like an XJ (90* off MJ) but have no gross/fragile underhang like the OEM XJ (or MJ) shock mounts
I promptly broke the Gr5 bolt off the ps lower mount, so with some work, v1.1 is on top the upper mount is a notched 2x2x.250 member with 9 holes drilled (1 centered & 4 more on 2" centers outward) to allow a lot of cant adjustment. and the lower ps mount is on the rear too. The shox are bolted to the x member at 2" either side of vehicle center.
The best I can tell (from 1 wheelin trip) is that even though the (stiff gas-charged 10" travel) shox have a sick inward cant, they ride fine and work well. From the mud-swipes I can see approx 3/4" of remaining rod, so they are not bottoming out... static ride-height is at 4" rod approx.
I guess my point is that there is a lot of leeway in setting up 'functional' XJ/MJ rear suspensions.