1) I imagine (from your log) that you install Eclipse/JDK from the
repository.

On that way, you must install Eclipse Updates as a root user. Did you
run the Install/Update as a  Eclipse 'sudo' user ?

2) I have encountered several problems working on repository-based Eclipse. 
Using only the repository, I can't even create a JSP project.

Could you do the same test with a downloaded version of Eclipse and the
Sun JDK ?

- Removing completely the gcj
- Installing the Sun JDK
- Installing the Eclipse from eclipse.org

I am doing the same process on my Edgy box.

-- 
eclipse crashed while I was trying to install a few addons through their 
updater. 
https://bugs.launchpad.net/bugs/102240
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