I'm not sure how widely this is being reported outside of Sweden (finding a text version of the story was nigh-impossible even when I knew about it), but Swedish Radio's international service reported today in their English-language podcast that the judge in the Pirate Bay trial not only had ties to the music industry, but he is also a member of two organizations specifically dedicated to strengthening copyright law, at least one of which is lobbying for increased penalties for copyright infringement. Perhaps that explains his decision to sentence the Pirate Bay crew to over a year in prison and a few million dollars in damages.
The best article I was able to find, although it still didn't cover it as directly as I would have liked, on this story was here: Pirate Bay Closer to a Retrial, Demands New Investigation
I really don't get this situation or how it could have come about.