Crowd alias fails with Confluence and JIRA SSO

When a user attempts to log in to jira or confluence with their alias it returns "invalid signin", but it still generates a SSO cookie with a crowd token. When I go in to the administration section of JIRA and Confluence and test crowd authentication, all of the users authenticate correctly. So, confluence and jira are able to authenticate the user but they don't seem to be able to recognize the SSO token generated for an aliased user.

Interestingly, if the user logs into crowd with their original username the generated SSO token is accepted by both confluence and jira. JIRA and confluence can't generate a valid SSO token for an aliased user, but CROWD can.

I would attach an error log but there isn't one. No errors are generated and nothing of any significance is in the log other than "xxxxmember failed to authenticate"

Any help with this would be appreciated.