I have a similar configuration as yours though I have not tried the JBoss 2.4.3/Tomcat 3.2.3 version.
I am attaching the modified version of tomcat-test.ear. The only difference is that the context-root in application.xml is '/' and not '/jboss'. Try putting in deploy directory and it shud work.
About the second problem, try deleting the subdirectories under JBoss-2.4.4_Tomcat-4.0.1/jboss/tmp/deploy and restart jboss.
Hope that helps.