I guess the biggest thing I would have done differently is spent more time planning the layout of the box. I bought components without regard to how deep (shallow) the box was, and had to get creative to make everything fit. it would've been nice to be able to use a multi-pole rotary switch to ensure I stayed away from dangerous voltage-resistance combinations. Also, I had to remove and replace the load-board a couple of times. That was a pain! Oh, and build incrementally and test often.
I've got some additional docs on the AR-II and power supply pinouts and can give you more information if you need it.