You may have to adjust the stall homing. See the video for this on their youtube channel. When homing y the machine is sensing the motor has too much resistance and assumes its at the end of the rail. If the voltage or current setting changes don’t work per the tutorial then the y rail resistance could be due to binding caused by imperfect squareness between the x and y rails which can be adjusted.
Grinding sound is characteristic of missing steps. Could be the right-side motor can’t overcome the resistance when turning the ball screw. Could be bad ball nut or ball nut to ball screw installation is skewed. Contact tech support for assistance. They’ll help you isolate and get new parts if required.
SkyKam, you may want to check out Doug’s explanation on the BuildBotics forum. I have mine working 60% of the time. The Y axis with tandem motors is tricky. Another source of binding for me was the table had a slight hump the the bearing block drug against adding friction. You should also be able to swap cables on the Y axis at the back of controller and see if problem moves to the left.
when you use the joystick controller, does the stepper follow your direction or sometimes it goes the reverse direction? also try to bring the all axis to its end and see if it reverses direction after reaching the end. if all above is whats happening, you have broken stepper motor connection somewhere and the cnc will not be able to go to homing sequence unless you find the broken connection and fix it