Preferences erased after shut down

Since a couple of months, my preferences get erased after shutting down the computer. Not always, but frequently.
The Dock, the Mouse and Wallpaper are back to old preferences. Mail has to be reconnected, ITunes library and the Iphoto library have to be imported again.
All this happens without my permission for any updates.
I didnt change the name of the Home file.
Any suggestions what I should do ?
Thanks in advance

And another thing: I cant play my MOD and VOB files. It used to work like a charm with Mpeg streamclip, the QT mpeg2 playback and QTpro. I updated QT to 7.4.1
Streamclip has no problems with older MOD files.
Now when I want to open a file, Mpegstreamclip says: _unknown filetype, cant find audio or videofiles. Open anyway ?_ So when I open it, it shows the movie, but it gets stuck after a couple of seconds.
Im not sure if this problem is related to the one I mentioned above.But now im beginning to think they are related. I talked to someone from the Apple helpdesk and he said I should be worried...

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