I have been running a couple of experiments. I saved a setting and it included manual height that is pretty far off of the actual. I did not use set focus. When I hit print, after processing, the screen image changed and the cut used the manual height. The resulting cut line was very wide compared to when auto focus was used.
To help other people that might have the same problem with focus issues and presets, can you state whether or not your presets had manual height settings?