Just measured my end-play, its about 0.006 to 0.007 thousands off the axle flange. If add in the rotors it really doesn't change any.
I have a Moser 12 bolt with big ford ends as well. Touring Classics rear brake kit thou.
Got my rear rotor runout down to 0.001 using a on car brake lathe thou, I'm stoked.
Sounds like you got your problem figured out. Good luck.