Brandon,
Did you get this resolved? It does sound odd, but anything is possible. The laser catcher only works on 2D as an optional input; it is not used with 3D GPS nor 3D UTS.
What "calibration" were they having trouble with? If 2D system was all set, should just be 3D measurements and "vectors". CAN issue?
I thought there was an issue with CATs and laser catchers, but that was bigger machines a year or so ago, in 2D mode. Never 3D; that I'm aware of.
If not resolved, ask them to make sure EVERY CAT ecm has the latest firmware. If there is an issue hopefully they can explain that.
If you have the machine, do some "sanity" checks for grade, extended, mid and close to cab to verify system is holding grade to your satisfaction.
Similar tests can be done in 2D to verify since 3D is built on top of the 2D.
Good luck!