Where you specify the properties file in JBoss:
/home/jboss1/programs/jboss-eap-5.1/jboss-as/server/haldev-vm-template/deploy/properties-service.xml
In the template you need to also have the properties file itself:
./conf/props/IngrianNAE.properties
Set the system property in the application:
System.setProperty(
"com.ingrian.security.nae.IngrianNAE_Properties_Conf_Filename",
"home/java/IngrianNAE.properties");