There are many improvements in Rose 2001.03. You can set up a specific Java classpath tailored to your current model in the Class Path tab of the Java Project Specification.
Another new features are: forward and reverse engineering for EJBs and configurable forward engineering for Servlets.
In the 2000 version I had many problems with Javadoc comments. Now it seems to be fixed.
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Piotr Aniola