I think the Citrix is the win32 client (I think). VLC is MUI (I think).. Not an Expert here..
Same mouse, but with BT.
Did you install it after the refresh? If yes, then it must be a Win32. If it was a MUI app, it would be automatically restored after the refresh.
I don't think its a hardware issue, since you have had good sleep study report for a moment. I suspect the problem lies in a desktop program. I could be wrong though
Try Sytem Restore to restore it the moment before you installed iTunes.
If all else fails, try this:
1. Refresh the SP3 again
2. Install one or two desktop program, restart
3. Test the sleep (give about 30min of connected standby)
4. Repeat step 2-3 until you find the culprit
It would take a heck lot of time tho.
In case you didn't know,
Win32 = desktop
MUI = Metro UI