Yes you can. Some specifics are here (references EJB2 but it the same for EJB3 when it comes to remote clients): http://www.theserverside.com/discussions/thread.tss?thread%5Fid=9197
Paraphrased:
Hashtable env = new Hashtable();
env.put("java.naming.factory.initial", "org.jnp.interfaces.NamingContextFactory");
env.put("java.naming.provider.url", "jnp://localhost:1099");
env.put("java.naming.factory.url.pkgs", "org.jboss.naming:org.jnp.interfaces");
Context ctx = new InitialContext(env);
// name is whatever JNDI name you gave it
Object o = ctx.lookup("home name");
EJBHome ejbHome = (EJBHome) PortableRemoteObject.narrow(o,EJBHome.class);
// This is userID should be the one passed.
EJB ejb = ejbHome.create(..);