Ok I managed to resolve these issues... the file not found seemed to occur because I put persistence.xml in the top leve lof the JAR file by accident and not in META-INF/persistence.xml where it belongs... the logging could really use some improvement! :-)
As far as MessagingType 'org.quartz.job' I discpvered that when migrating to Jboss 5 I needed to replace the annotation imports using the Jboss 5 ejb-annotations jars.
Thanks!