You have options, not to worry. Send a PM ( private message) to Wiz1500. Keith knows all the part numbers and all the skinny on ford rear ends. You can get whatever parts you need, I not to long ago replaced a tweaked axle. He is in Mi and can get you hooked up if you end up needing to fix it.
If things are as bad as they are making out, talk to Wiz first, your other option is to find a takeoff rearend. Call Connor out at Outlaw Offroad and see what he has, they end up pulling stock ones and installing Curries and the like when guys go long travel. There was a stack of them last time I was there.
Good luck, know its a bummer and hassle but the truck is worth it and in the long haul you will have a blast w your Raptor.
I am curious what really is broke, post up info as thing develop, there are a bunch of guys here that have really put some offroad miles on these rear ends without issue as long as you don't hit anything.