The lug nuts were all torqued to spec during installation. Have not checked the runout... After the runs, the brakes shake horribly and there is glazing. It has been about two weeks since and after some more hard braking here and there it has gotten a little better, but my confidence has decreased significantly.
Rotors have to get really hot, like 1500-2000°F hot to cause warp. G3000 and G4000 gray cast iron (most common rotor metal) melts at 2093°F.
At about 850°, pads will start to smoke.
At 1100°, pad friction material begins to oxidize.
At 1200°, pad friction material begins to carbonize.
At 1400°, Rotor discoloration and glazing.
Still not hot enough to soften the rotors enough to warp. The fact that you say your brake judder has decreased over time would make me suspect you're wearing the pad glazing off the rotors with subsequent hard braking rather than having warped rotors.
Fine grit garnet sandpaper and a sanding block can remove glazing from the rotors. If you try this, don't use aluminum oxide sandpaper as the oxide will permeate the cast iron and can cause chatter or squeal. You might try having the rotors turned if there's enough remaining thickness to do so. Inspect your pads for glazing also. Some more brake bedding may help remove/evenly distribute pad material on the rotors too.