So, I flipped the connector on the motherboard and everything works as it should now. The connector is in backwards now, but it works.

At this point, I am just assuming that they used the wrong wire harness when the printer was refurbished. All of the pics I've seen show a black connector at the stepper motor for the left extruder and a white connector to the stepper on the right. Mine has a white connector for both and the wire colors from left to right are yellow, red, black, orange.

Thanks for the help.