I'm not able to reproduce your problem :(
This is my jar file content:
>jar tf jaxws-jbws2634.ear
META-INF/
META-INF/MANIFEST.MF
META-INF/application.xml
lib/
lib/jaxws-jbws2634-handler.jar
jaxws-jbws2634.jar
jaxws-jbws2634-ejb3.jar
jaxws-jbws2634-pojo.war
and injection works fine for me ;)
Attached is my sample application (sources included).