Well the good news is, I tried a full desktop PC, and with some tweaking of those pin settings I managed to get all 4 steppers working perfect with 2 steppers on X axis slaved. On my board though the 4th axis slaved to X was actually C axis, not A.
The weird lights cleared up too so I can only assume the parallel port on the VIA ITX motherboard isnt compatible, or normal.
I ran the board at 100% current but found the steppers got a tad warm, went back to 75%.
I'll see how I go once I have the steppers all mounted up on the screws. Cant wait