gjt3,
The newer versions of MyEclipse supports flexible deployment using Deployment Assembly. The Deployment Assembly allows you to customize how your projects need to be deployed.
Right click on the project,select Properties from the menu, expand MyEclipse, and select Deployment Assembly. You can add the libraries and projects that need to be deployed along with your project. You can also configure hot-sync for utility and EJB module changes to the deployed web application.
Please check this tutorial to get started with the MyEclipse Deployment Assembly :
MyEclipse Deployment Assembly
Hope this helps. Let us know if you see any issues.
–Swapna
MyEclipse Support