Logging is available under Help > Logging.
Not sure if what it captured will be helpful or not. That's very odd... I can imagine it being a hardware issue, but you'd think that changing modes would impact it then... Does it even happen in DirectSound mode?
Have you tried un/reboot/reinstalling any audio hardware drivers?
The log shows when a track change is triggered, but I don't know if it shows what triggers it. (Matt??)
If you've got onboard sound, it may be an idea to try it, but at the moment, I'd be more inclined to point the finger at the files themselves.
Try running a few of your problem files through Audiotester and see if it complains about anything:
http://www.vuplayer.com/other.phpIf you've got another machine entirely (Laptop?), I'd try them on that and see if they skip there too.
Unfortunately at the moment, this is a slow process of elimination
Once we find that cause though, I'm hopeful that JR will be able to fix it quickly enough!
-Leezer-