Hey Mmendez,
this looks like a 10:16 issue. Are you sure you have all settings in the Motors Tab for Motor “0” (which should be set to X axis) exactly like showed in this posting:
Proper Motor Settings for x-50 rails (Woodworker and Journeyman), with 1616 ball screw configuration
Can you also check that for the motor of Y Axes, the travel-per-rev MUST NOT be 16, but 10.