I'm using the Eclipse "Internal Glassfish 3.1.2.2" server with the Eclipse Glassfish plugin (http://download.java.net/glassfish/eclipse/juno). I'm also using Maven with the m2e Eclipse plugin. The Glassfish plugin correctly deploys my EAR modules to the Internal Glassfish, but it does not deploy my dependency jars, which I believe should end up in a folder called "lib".
I found a partial solution here, which is to add my maven target lib folder to the EAR Deployment Assembly (double-click in the Deploy Path box to edit). This works, but m2e (or m2e-wtp) undoes the config change when I do Maven > Update Project.
There ought to be a cleaner solution. The Eclipse Ear Module Assembly dialog has a field to name the "EAR library directory", so it's aware of the lib folder. Where does Eclipse EAR assembly (without Maven) look for jars to put in the lib folder? I assume the Glassfish plugin is looking in the same place.