The logic for VFSUtils.addManifestLocations is not working for wars in ears, probably all nested archives with class path manifest entries. One example in the jbossas testsuite is:

org.jboss.test.web.test.ClasspathUnitTestCase

2008-01-24 16:09:03,284 DEBUG [org.jboss.virtual.VFSUtils] Manifest Class-Path entry jbosstest-web-util.jar ignored for manifest-web.war reason=java.io.IOException: Child not found il.jar for JarHandler@1842226989[path= context=file:/home/svn/JBossHead/jboss-head/testsuite/output/lib/manifest-web.ear real=file:/home/svn/JBossHead/jboss-head/testsuite/output/lib/manifest-web.ear]