I'm using Mach3. I have 2 limit switches on X, 2 on Y and 1on Z for retracted/home. I can go to diagnostics and see the switches/inputs working. But when I move with jog or gcode they have no effect.

Did you set them up as limit switches or home switches? Additional Information: Not sure where do I check that? Additional Information: Go to config, then ports and pins, then input signals. Additional Information: The limits are labeled x++, x— for example.