The org.jboss.tools.jst.web.xml file duplicates information that is already contained in the .classpath file and the org.eclipse.wst.common.component file in the settings directory and does it pretty badly (no java environment variables supported, it puts jar files in the web-inf/lib directory that Eclipse should do at build time only). This just adds yet another place to configure a project's artifacts, lots of broken project settings because of conflicts and incompatibility with Maven 2.

Can this be cleaned up in future releases? It is as if the plugin was built with no prior knowledge of Eclipse.

These changes are critical to having a usable tool. Right now I cannot use the plugin for much more than editing JSF pages and building broken deployments.