If you're running an all-windows infrastructure to begin with, there shouldn't really be any issues. We had problems in our transition because our DNS is not Microsoft based and doesn't support Dynamic DNS updates. The 2008 clustering wizards really try to help you out by making sure all the DNS stuff is functioning properly, but they just weren't designed for an environment without DDNS. There are workarounds to get it working, but it's kind of a headache.
We actually have an open support case with Microsoft regarding this issue. They claim the fix will be implemented in 2008 R2 (aka Win7 Server).