Sounds to me like you're on the right track Gabe. The nice thing about the items that you're using is that the Roadstercycle R/R basically makes the entire charging unit a stand-alone system. It removes the stock wiring and by upgrading/replacing the stator, if there were any glitches in the system, they're a non-issue now.
The hardest thing now is to take your time. It can be tempting to "make'r fit!" to get back running again, but it's much better to find the best place/way to mount the R/R, and the best way to route the wires. The new R/R is probably going to be larger than the original, and the mounts probably won't line up, but it WILL fit in that area. I mounted another piece of metal and cut off the original studs so that the new R/R sat a little lower, without hitting the swing arm, but still tucked up in that same area. The wires go directly to the battery and are much heavier gauge. All good things.
Once you get it completed, there'll be nothing more to do but go for a ride! Enjoy it!