If I understand your question:
- your bundle's MANIFEST.MF contains Bundle-ClassPath: .,myOtherLib.jar as described in the FAQ
- your bundle does include myOtherLib.jar at the root
- your plugin works fine when you start the Virgo server on the command line
- but when you start Virgo from Eclipse you get a dependency error because it cannot find classes from myOtherLib.jar
This is very strange, it shouldn't matter where the server was started from since it is the same plugin bundle, so I want to make sure this is your exact use case.