Seems like i spoke to soon, it seems the limit switches are disabled with the firmware, i was using printrun to set the Z level, and the X & Y
did not stop when the limit switch's clicked, and also Z did not work at the start of a 2nd print and etched a track into the plastic plate and tape.
Also with Netfabb generated Gcode i just get printrun showing a repeating T option in the box on the righthand side and nothing prints, i can get prints with Skeinpypy. But not good prints (but that is for the skeinpypy thread).