Lion not saving system preferences on restart
I'm using Lion on a new Macbook Air where it came pre-installed. I just updated to 10.7.2 and Lion is no longer saving my mouse and keyboard settings.
I have "Scroll direction: natural" unchecked but when I restart my Mac natural scrolling is enabled. When I open up Trackpad settings the setting is unchecked by I have to re-check and then uncheck this setting to turn off natural scrolling.
I have custom modifier key settings (General Settings -> Keyboard -> Modifier Keys) where I swap Command and Control. My modifier key settings are now getting reset to the default every time I restart my computer.
Any ideas on how to fix this? I've tried calling Apple Support but they are no help.