I wasn't able to reprogram the controller, I suspect the serial port is bad, but it could be the software communicating at a wrong baud rate. The software is sending the initialization sequence but I get no response out of the controller, or anything going on in the progress bar.
In the meantime, I've ordered another from Lyen as a backup and a spare for my on going projects. Currently, rewireing it so it can be swapped. Lyen recommend 12 FET 3077 Mark II Extreme Modder as a good choice since I won't be going over 72volts. I would prefer to stay away from higher voltages, just to avoid the extra saftey precautions. I will eventually take apart the current controller to figure why it's not programming as well as increase the traces and mod the shunt.
I spent last evening trueing up the front tire. It was bent badly by the previous owner. Very frustrating to work on, most of the nipples were rounded off. I eventually tore apart the wheel so I could adjust it from the spoke ends. Had to find a flat screw driver bit of the correct size and Dremel out the center, this made another useful tool. The front wheel is now usable. I will eventually need to buy a new front rim, since you really can't get the rim unbent by just spoke tension. I'm getting .1" variation. I will see how it works out first.