@Norway
His web site has PCB files in Protel/Altium format, so he;s already got something that may be a little more advanced than Eagle is. Eagle is an OK tool though, I have had schematic module for a while and just bought the layout module this morning. I hear Eagle's autorouter module leaves a lot of users wanting better, so I didn't pay for that one, I'll have to tough it out the hard way by hand. I've got other projects in mind though, I don't expect I'd have time to fiddle, and I'd want a big BGA FPGA and thus be better off starting over anyway.
I think it should be relatively easy to test a soldered BGA FPGA alone. All those pins go somewhere, right? Have a couple different FPGA test configurations to check for 1's and 0's in whatever pattern makes sense. Might take a while to hand-probe, but I've hand-probed boards with 8 BGA sockets of many hundreds of pins each before. (special test boards, you wouldn't normally socket a BGA chip for an end-product) Time consuming and tedious, but doable, and you get faster after doing a few, but I don't think it'd be particularly "hard".