Post a photo showing the jumper positions.
This shows the correct jumpers for cloning the Y axis.
Did you enable variable spindle speed control (or laser control)? If so, from this page:
For Grbl v0.9 and v1.1+ default builds: (NOTE: Z-limit is on D12 and the spindle enable pin uses the hardware PWM on D11.)
UGS may be expecting the Z limit on pin 11 instead of 12. Z limit was on pin 11, by default, on older versions of grbl. I don't know how to fix that in UGS.
