One thing you can always do to check before you attempt an engrave is to just lightly score the Snapmarks first, to see if they fall on the original ones. That doesn’t look like it was even close.
First, take the tiles out and let the design snap into place using just the jig on the bed. Make sure to use the jig thickness for the snapping. Test the alignment with the light score of the marks. Then carefully place the tiles in the holes without moving the jig, and make sure that you have set the correct thickness for the Engraving step (only) to match the thickness of the tiles.
You either need to make sure that the jig surface is at about the same height above the tray as the engraving surface of the material, or do some manual overrides for the focal point in the engraves.
There’s a write up on it here: