Tragedy? I think not. It's murder. First, he gets stranded and braves the wilderness. So why was he found dead without pants? The real reason was because there was a struggle.
The dirty truth is that James Kim was in the midst of writing a book on Microsoft's upstart MP3 player, the Zune, and was going to blow the digital music industry wide open. Microsoft killed him to keep their product future secret and didn't want to expose the truth to the masses.
I'm not sure why he wasn't wearing pants, but I am pretty sure it has to do with Microrsoft.
... but why did he take his pants off?