Very interesting post tolip. I appreciate the link for the JTAG and mentions of neppy boards as I haven't had a jupiter or neptune to confirm.
Would be nice to make those bridges cheaper, my new batch will be ready this weekend (for those that don't want to make their own). Also note, the bridge boards aren't just rewiring pins. There's a voltage regulator on there, hence the burning out of some boards, that will also have to be taken into account if you want to make your own (you can use a Harwin M20-7872042 and a Farnell 1256663 for the connectors to fit with the Pi).
I'm not too sure about having control over that cyclone though.