The Viper "Super44" diff is unique to Vipers and certain Corvettes in that the pinion shank, bearings, and pinion spline is actually the size of a Dana 60. The pinion gear and ring gear are standard D44 dimensions. A hybrid, if you will. Regular old Dana 44 gears can be installed, however a sleeve must be welded to the pinion shank of the smaller D44 to make it the appropriate size for the Viper's inner pinion bearing. A new outer bearing, seal and smaller spline yoke must all be sourced as well, resulting in more money for a much weaker rear end.
Beginning in '95-'96 Vipers began to receive larger 7/16" ring gear bolts instead of the smaller 3/8", all else being the same. A few companies have bolt kits with spacers for installing small bolt gear sets onto a large bolt case. If you install a large bolt gear set onto a small bolt case the case holes must be enlarged to accomodate the larger bolt. All gear sets will interchange from '92 to '08.
However, differentials between '92-'02 and '03-06 will not swap. The SRT diff is much wider, and will not fit in the Gen I/II housing. The '08-'09 GKN differential will swap into a '03-'06 SRT housing, but you must buy the axle stubs for the '08-'09, as there is a difference there.
I hope this brings everyone up to speed.
Oh, Re: the 3.54 vs 3.55, they are the same gear. It's a matter of rounding, as mentioned before.