You really should look into SELinux, disable it if it is running. It can cause weird
problems like this.
Did you by any chance change the jbossas config to use a port other than 1099 as the jndi
port? Run a netstat to see if 1099 is open.
Also, try shutting down by logging in as root and running:
service jboss stop
this should attempt to stop the app server using the same account used to run it.
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