This problem was part of another thread on this group, but since parts of the original problem are solved I moved it here for the sake of clarity once it had been a bit better isolated.
The problem I am having is that the slaved y axis steppers are missing steps and not working consistently. I can jog all day and type in gcode commands and everything works perfectly, but when I run a program, the Y starts going crazy. Sometimes it works, sometimes only one stepper works, sometimes they fight and rotate in opposing directions, sometimes it skips etc... It is a bit all over the place.
At first this problem manifested after an hour or so of hard back-and-forth tool paths and I figured it might be that I was torture testing my motors so to speak and they were just at their stress/heat limits. But after resolving that, they still skip, even minutes into starting a program, and far worse now than I have ever experienced with them.
Attached is an image of my motion planner settings, step response configs, and the most recent program I tried running that made my machine lose it's mind!