Verifying you are Joining the Active Directory Domain

[Axford M.F.]

> Plus when I go to my 2008 Server and I open up Active Directory, Select my
> Domain and choose Domain Controllers that my FreeRadius Server isn't listed
> in that directory but it is listed under computers.  Is this correct?

That would seem likely as it's not a Domain Controller. The default place for any machine that's not a Domain Computer is Computers.
 
If you have a computer object (and it's been created/updated recently) that would suggest you've joined the domain. However as others have mentioned you probably need to get the time issues sorted otherwise you might find authentications don't work that well.

Mike