Glance at this CRT conversion pic and you will see I spent considerable time planning out my dream conversion. I chose the CRT at the time soley for two reasons.......at the time Mike suggested it, and I was able to find more parts more easily, including my local track. Bout the same time I finished it, the 8T released and Mike wnt off and converted the Losi 8T rather than a CRT (well, it is his job to be familiar with all trucks after all). I spent so much time on the computer planning and calculating the best layout that I can now look at any truck and picture in my head wether or not it would be optimum for a conversion.
And at this point, I still would have gone with the CRT. But only because I wasn't worried with obstacles lilke keeping existing locations of the center diff, braces, servo's. I also wanted a single battery layout. I suspect you would preffer a more straight forward conversion. Given this assumption, I think the 8t is the best candidate (Mike's 8T conversion pictured below). The offset center diff and gearcase diffs already allow you to mount a single battery closer to the centerline of the chassis without having to relocate everything and create a need for more custom parts like the drive shafts (the dominoe effect WILL enter the project somewhere. I call it "scope creep"). A closer to center mounting of the pack gives better handling, generally. However, I feel the CRT is a bit tougher.
If you want to go with high voltage/high capacity batteries and long runtimes (which means more battery weight), I think the split battery (side by side mounting) is more convenient and the only way to get left to right balance on the chassis.
For a split battery option, I'd prefer the CRT as it has a bit more of a canvas to work on.
Sorry, could babble on about this one. I'm sure there's other valid pro's and con's for either one. Just my opinion.