If you multiple subdomains e.g.:
sub1.domain_name.com
sub2.domain_name.com
Is there a way to have a user be able to log into both
Yes. Just set the cookie on the domain ".domain_name.com" and the cookie will be available to sub1.domain_name.com, and sub2.domain_name.com.
As long as you maintain your session information on both domains, you should be fine.
This is a very common practice, and is why you can log into your Google Account at http://www.google.com/ and still be logged in at http://mail.google.com.