Hmmm. while I havent used the bcd on 2008R2 systems, I do know there is the bcd store available under EFI in the dvd or iso image of the win2k8 R2 editions. Further from MS, http://technet.microsoft.com/en-us/library/cc766223%28v=ws.10%29.aspx
I am setting up the environment as I type to see how different it could be from BIOS recovery.
Hope that helps,
zXi