I made changes for this. I first had to change andromda metafacades because uniqueGroup was not token in account for entity association ends. Then I changed EJB3 metafacades and some templates. Everything is explained here :
http://galaxy.andromda.org/forum/viewtopic.php?p=25455#25455
As attached files, you will find metafacades model for both andromda and EJB3 cartidge + java classes and templates. Note EJB3 Java classes and templates consider you have applied the dao / transformers patch before.