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Anyone have any more suggestions on what I can check/try?

I am now on 2.7.14 Wheezy, Dell optiplex 9020, Netmos9900, and latency under 6k. The stepper will jog and then quit working shortly after, regardless if there is "pausing" or not. The PCIe parport shows "disabled" in lspci -v, and even if I enable it via the terminal, the stepper still doesn't work unless I reboot.

Any ideas at all are appreciated.

There is nothing on the Hard Drive except Ubuntu

Why do you need to control the brake like this?

Stepper motors have full torque at 0rpm. If the stepper is powered you should not need the brake. Brake should be turned off when the CNC is powered on, then brake should reactivate when CNC is powered down.

Or is this a brake for 4th axis machining?

Brakes integrated into steppers or servos are not designed to be used for machining, they are jus to hold axis position when the motor is off. Usually to stop Z axis falling under gravity.

You could try this:

forum.linuxcnc.org/nativecam/53492-nativ...-9-3?start=80#327780

Regards
Giovanni

I liked it also, after 2.7 it went to joints/axis(something like that) and mini was not maintained after that.