Just to remind you in case you missed it, the alternator can be removed or installed with the engine in the frame, although you do need to remove the tank and swing arm. Maybe that does not suit at this time.It looked like that to me also - you might have to have it sort of in place before you move the engine in.
As I said, I just didn't want to go through the hassle of trying it and then having to pull the engine again if I was wrong.
GC