stop worrying about it.
At JBossWorld in Vegas, Dimitris gave an excellent presentation on the JBoss POJO-based MicroContainer architecture and one of its prime benefits - the ability to run various components outside the app server. (Many of the other presentations reflected back on this fact also.) It would be worth checking out that presentation when it becomes avialable on the JBoss web site. But regardless of this fundamental change in the architecture, the fact is that the JBoss app server will continue to be Java EE certified, and thus any code you write to the Java EE specs will continue run. So as Scott said...