Thickness variation can be checked before mounting them, just measure the thickness at several places around the rotor (same distance in from the edge) and compare. I haven't been in the habit of checking it, but I will from now on.
The rotors have to be mounted to the hub to check runout; and frequently you can get the runout below spec by fiddling with the mount. Turn 180 degrees and remount, or sand just a bit from the mounting surface. A normal part of installing new rotors.
Personally, I never turn them at all, but follow the factory advice in that old TR3 service bulletin. Either run them the way they are (after breaking the glaze) or replace them. They were presumably machined correctly to start with, and if they have warped just sitting in the box, then the casting is bad and they will quickly warp again in service.
Wouldn't hurt to start a new thread about rotors; I'm interested to hear what folks have to say. But I will stick with the stock type rotors; pretty much everything I have read says that cross-drilling and slotting have more disadvantages than advantages.