Let's brainstorm together to find solution

Under normal circumstances, this is true. Unless you use G92, your Z should be persistent.

I can think of a few exceptions:

  • bit shifted inside collet (collet nut not tight)
  • router shifted inside mount (mount not tight)
  • workpiece shifted up (possible with side clamping e.g. cam style)
  • X axis tilted up about the side plates (possible in a Z crash)

.5" is hard to imagine though. It would make me suspicious of lost steps.

EDIT:
Which reminded me of this.

This was a very weird situation. I once experimented with 2:1 gearing and 1:1 ustepping on the Z (as opposed to 1:1 gearing and 1:2 ustepping) and experienced consistently lost steps that were consistently affected based on acceleration and junction deviation values.

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