It is not recommended to have duplicate users in any version of RSA Authentication Manager. There are some cases where administrators have same the user ID on multiple identity sources. Again this is not recommended and, if this is not intentional, please search other solutions regarding un-resolvable users and principal ID already in use error.
However, if duplicate user IDs are intentional and you are getting the following error, you can resolve your issue using the solution below.
Cannot add or manage a user with user ID <UserID>. User IDs must be unique within a deployment. This user ID is already in use." while taking any actions such as assigning tokens, adding groups, permissions etc to a user id with duplicate userid in realm,