This is a regression.
In version 1.2, Adium checks the SSL certificate provided by the Jabber server against the hostname to which it connects, instead of the XMPP domain name.
The resulting behavior is that Adium complains that the SSL certificate does not match the server hostname.
This is incorrect. The SSL certificate is issued against the XMPP domain name, which appears at the right side of a Jabber ID and can be different from the server hostname when DNS SRV records are in use.
Previous versions of Adium (up to 1.1.x) did the right thing, by checking the SSL certificate against the XMPP domain name.
(interestingly, iChat has the same bug -- which has been reported to apple since iChat supports Jabber)