Sorry, brain edited out a couple important things.
ESS smooth stepper driving a C11G and this is intended to compliment a C25S that has not yet been installed.
I'm trying to make damn sure I've got all the things thought through before I change anything.

Here is an idea for the output board. You could output to relays or solenoids. The ULN2803 has the protection diodes built in. If you already have 12V relays an LM2596 module from eBay will make 12V from 24V much more efficiently than a linear regulator. They are available with or without screw terminals. One without could be mounted on your PCB. Match the pad spacing on your board and use stiff wire like resistor leads to connect it.

Alright, so I've taken you guy's input and I'll be giving the board a rethink. I'll post up a new thread after I plan it out to get some further input.

Keep being awesome guys.