What's the model? An M1028 will have 4.56s, Detroit 14 bolt rear, LSD D60 front, and Turbo 400. Usually will have an NP208 I believe. The M1008 is the same minus the LSD up front. Both are 5/4 ton trucks. I had every plan on buying one this year, but cash didn't come through as expected and I had to buy something cheaper. The M1009 is a Blazer and is 3/4 ton with 10 bolt front and 12 bolt rear, or something similar. I didn't pay as much attention to those as my plan was truck all the way. The M1009s will have 3.07s in the axles.
If you're going to swap transmissions, the 700R4 seems to be the way to go. 4 speed w/OD vs 3 speed, and the gear spread is well-suited to the 6.2. One of the guys at 4 Wheeler or 4WOR built one with an SM465 and he recommends against going that route. The gear spread didn't match the power curve very well.
My plan was to buy an M1028, put a 2-4" lift on, trim the fenders and run modified HMMWV 12 bolt wheels with the 37" radial HMMWV Goodyears, find a 6.5 turbo diesel to steal the turbo and manifolds from, and build it to be the ultimate tow rig/recovery/camping truck.