Personally I would think a lot about this decision:
with nvidia you have great clients for folding, seti, gpugrid, lattice and many projects to come, with ati you have milkyway and folding (with a miserable client) and as of now not even official boinc support. At this moment the ati gpgpu software language hasn't reached the maturity of nvidia's cuda (folding people notice it every day). I don't know about milkyway, but every other gpgpu ati software uses a whole cpu core to feed the gpu. (folding was able to prevent this by trading cpu usage with instability

)
In addition I don't think this will last long since they are actively working on a milkyway gpu subproject with official clients and as far as I know credits in line with seti's cuda because so many people argued about milkyway's and aqua's credit inflation and seti is often used as guideline to the credit system.
That said it is indeed tempting provided that I'm interested in astronomics and it's a great way to speedup their research, but I wouldn't want to mess up my nice boincstats because I think the work done is not in line with the credit granted. Personally I crunch for the science and use the credits as a benchmark of the work done and incitation. Not the other way around.
Please consider this for your choice as I don't think it will last...