Skyhook apparently threatens companies that try to crowdsource such things, case in point Mozilla. So, you're either paying off the patent troll or using their services.
What I mean by crowdsourcing here isn't Apple bootstrapping a parallel database, either using Skyhook or their own GPS-only data, but rather them feeding into Skyhook. I'd be very surprised if Skyhook was opposed to that.
Given the ubiquity of Apple devices, I wouldn't even be surprised if Skyhook paid Apple at this point.