Here is the update.
I have wires strung up all over my garage and I'm trying to get my first axis motor under control.
I have a problem with my encoder and or my G320. The Gecko manual describes a procedure of hooking your voltmeter to the test points under the hood and turning the motor slowly by hand. This voltage is supposed to represent the position error, and is supposed to start at 5v and work its way down to 0.4v as you turn the encoder in one direction, and up to 9.6v as you turn it the other direction.
Mine starts at 5.12v, and drops slowly to .3v in one direction, and drops much faster when turned the other direction. Nothing gets the voltage to go above the starting point. I figure this is either a problem with my encoder or with the Gecko.
I don't have a scope, so I put my meter between the A and B channels of the encoder and got a 0v, +5v, 0v, -5v, 0v pattern, so I think my encoder is good.
The other oddity I've encountered is my Sound Logic BOB. My x-axis LED's are on even when I unplug the parallel port. They also don't change at all when it is plugged in. Still a little squirrellyness to work through.