Originally posted by RogueAngel
Does anyone know the wire mapping between the MS2 wiring (green/white, white/green, blue/white and white/blue) and the connector wiring (yellow/blue, gray/blue, orange, and gray)?

I can tell you that for a standard MS stepper motor IAC rig, the green/white wire goes to JS3, the white/green wire to JS2, the blue/white to JS1, and the white/blue to JS0. Given Corbin's information, your connection scheme should look something like this:

white/blue = IAC yellow/blue stripe
blue/white = IAC gray
white/green = IAC gray/blue stripe
green/white = IAC orange