Hi I run vista you don't say what your OS is.
I turned off auto updates and I prefer to be told when updates are available.
When I am finished for the day I run Win updates and select what updates I want.
If its on Automatic Vista updates and with no warning shuts down in the middle of whatever I am doing and restarts to me that's annoying.
Just a thought auto update may not work until it catches up with all its updating.