the whole drivetrain balance is not interdependent. If you have vibrations, its likely your carrier bearing is bad.
The PTU harness relocation requires you to cut the plastic sheath over the wires to separate the coolant sensor harness that still runs that way. You shouldn't have to cut any wires, just use good electrical tape to make your own new harness leads.
Cheers, JBrobst
"A life spent making mistakes is not only more honorable, but more useful than a life spent doing nothing." George Bernard Shaw