I have a new WIndows Server 2008 R2 x64 DataCentre with Framework 3.5 SP1 and Framework 4 installed. When I install my MVC application (VS 2008 MVC 2.0 using a Web Setup pro
You could do a server install which doesn't require Visual Studio installed:
msiexec /i AspNetMVC2.msi /l*v .\mvc.log MVC_SERVER_INSTALL="YES"
Now you are probably asking where's this AspNetMVC2.msi coming from. Actually you download AspNetMVC2_VS2008.exe from here, rename the .exe to .zip and inside you'll find what you are looking for (in the mvcruntime sub-folder).