Timers are persisted in a table "timers" in the DefaultDS per default.
This may have been changed in deploy/ejb-deployer.xml at your side.
The primary key contains 2 fields: timerid and targetid.
For my app there are two times defined.
timerid  1
targetid 
[target=jboss.j2ee:jndiName=mbi2e-lafr-sb150-ipc/MessageEraser,service=EJB]
timerid  2
targetid 
[target=jboss.j2ee:jndiName=mbi2e-lafr-sb150-ipc/MessageObserver,service=EJB]

Do you have entries in that table when all apps are undeployed or jboss is 
down? Delete them once.

Using jboss-4.0.4RC1 here takes care of existing entries. The timer entries 
stay in the database on shutdown and are reused on startup. But there have been 
some modifications between 4.0.3 and 4.0.4 concerning the timer persistence 
handling.


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