I configured Windows AD without SSO on Tomcat mapped to one Domain yesterday and it’s working fine.
I had a few issues with defining the SPN in the CMC, but apart from that I can log in using Enterprise or Windows AD from both the CMC and Infoview.
I was not aware that you could map to multiple AD domains though 
Edited: Is there not some confusion as to multiple domain CONTROLLERS as opposed to multiple DOMAINS ? i.e. redundency vs separate domain access?
What messages do you receive when trying to log in?
This Yet another Kerberos/AD login problem helped me get through the process 
MikeD 
(BOB member since 2002-06-18)