Alright, just got off the phone with warmoth, to be able to use the tune o matic bridge with a Tele pickup it looks like I'm going to have to have to have the pickup without an angle in the bridge position, because the tele pickup route with an angle cuts to close to the TOM bridge posts, and if hit it could break and cause the TOM posts to become unanchored, warmoth won't put a straight route there, so have to get somebody to do that.
This brings me to my first, will a straight routed bridge pickup change anything besides the look?
I'm going to have to get a luthier to do the bridge pickup straight to work with the TOM, have him recess and put in the posts for the Tom and then setup that and put the stop bar in the right spot.