Sadly this works for me, but looking at the dependency files, I do see a possible sticking point. The dependency file is listing specific versions required, and this might be mucking things up. The file currently reads as follows:
Require-Bundle: org.eclipse.ui,
org.eclipse.core.runtime,
org.eclipse.jdt.core;bundle-version="3.4.4",
org.eclipse.jdt.ui;bundle-version="3.4.2",
org.eclipse.core.resources;bundle-version="3.4.2",
org.jboss.ide.eclipse.archives.core;bundle-version="2.0.0",
org.jboss.ide.eclipse.archives.ui;bundle-version="1.0.0",
org.eclipse.ui.navigator;bundle-version="3.3.102"
This is listed in the org.jboss.ide.eclipse.archives.jdt.integration plugins' META-INF/MANIFEST.MF file. It's possible that removing the ";bundle-version="etc" part of the line and replacing it with a comma will fix it.
But I'm not even noticing any errors in my console log.
Either way I'm going to push this change to trunk immediately and remove these hard-coded version dependencies. I'm not sure if it will fix the problem but it's obvious they don't belong there.