By updating GeSHi to the most recent version (1.0.8.10) I was able to
fix this issue.

My steps taken:
1. download GeSHi distribution archive, uncompress (you will get a geshi folder)
2. backup old /usr/share/php-geshi
3. replace old /usr/share/php-geshi with the geshi folder from inside the 
archive
done

URL http://sourceforge.net/projects/geshi/files/geshi/GeSHi%201.0.8.10/

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https://bugs.launchpad.net/bugs/843908

Title:
  Java files are shown with garbage and broken links

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