Whether or not a fuse blows would depend entirely upon which circuit blew and why.
My guess is that a wire had chafed or something touched ground. In theory it would blow a fuse. but fuses take time to blow (not much time mind you, but time nonetheless, Google why GFI's came into use). A dead short if a pretty powerful force. You can use smaller fuses, but as someone else suggested it would be best to rely on your dealer and your warranty.
Harnesses evolve and it is not always possible to get an exact replacement. Some adaptation can be required for certain. Now lets think about time....
60 hours is a full week and one half of a skilled technicians time. Does is seem reasonable that it would take anyone much less a skilled technician that long to even hand construct a harness and totally rewire a bike with no wiring diagram whatsoever?
I am not suggesting that what you weren't told that, but it sounds a little dramatic to me.