I have not experienced this problem however I have used more tags than you do when setting up my relations, maybe this will help. See notes below..
Thanks for your notes. I had some reservations about using the two attributes you suggested (target-role-name and target-ejb) since they are advertised as being for unidirectional beans only, but I tried them anyway hoping that the bug was a documentation issue. The result was an identical Weblogic deployment descriptor, which kind of makes sense in that the two tags you added are not Weblogic specific.
-pmr
...
-----Original Message-----
* @ejb.relation
* name="AlarmMessageRelation"
* role-name="Alarm-has-a-Message"
*** Added Tags ****
* target-role-name="Message-has-an-Alarm"
* target-ejb="Message"
*** End of Added Tags ****
*
* @weblogic.column-map
* foreign-key-column="message_id"
* key-column="message_id"
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