That's not much runout. Where are you measuring at?
Before using a shaft on a cue, I put it between centers & watch for wobble. A wee-bit of wobble is fine & actually can be expected. Anything noticeable that you feel would cause the cue to wobble when rolled should be scratched. A shaft has to have considerable warp or an off centered face to cause a noticeable wobble when rolled in the table. .002" is less than half the thickness of a human hair, with .015" being roughly 3 human hairs thick. That's nothing. 0.2" would be a warp you'd notice but even that isn't enough to cause the assembled cue to wobble on the table if it's faced correctly.