Actually for me, xdg-mime query filetype returns application/x-jar,
which does not exist, instead of application/x-java-archive.

kmimetypefinder returns the following results:
$ kmimetypefinder -f JDownloader.jar
application/x-java-archive
(accuracy 20)
$ kmimetypefinder -c JDownloader.jar
application/zip
(accuracy 40)

I do not see how the score of the filename-based result can be so low.
At least it returns x-java-archive. Actually, I have an idea: the mime
database also contains an application/java-archive key, which associates
jar files with the Sun Java Runtime.

I have completely reinstalled my system with 9.04. However, at first I
installed Ubuntu (with Gnome), so maybe that also has to do something
with it? It is not on my system anymore, though.

** Changed in: shared-mime-info (Ubuntu)
       Status: Invalid => New

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KDE always associates *.jar with the zip mime type
https://bugs.launchpad.net/bugs/309778
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