Using Eclipse 3.7.2, JBoss Tools 3.3 final, JBoss EAP 6.0.0 and Java SE 6 on OS X 10.6, I need to give the stop command twice before JBoss EAP 6 actually stops.
The first time it says stopping and "Connecting to JBoss EAP 6.0 Runtime Server via JMX" for several seconds. Then the message goes away from the progress view, but seemingly nothing has happened. In debug view I see all the server threads are still there. The server runtime then moves back from the "stopping" status to "debugging". If I give the stop command again (via the Servers view), JBoss EAP stops nearly instantly.
I've tried with a completely bare EAP, without any apps deployed to it, as well as with an app.