For the past week or so each time I shout down the computer it says it's loading windows updates, then when I turn it on the next morning it says not to turn it off because it's configuring windows updates and it takes about 5 minutes or so. It never used to do this. What's going on?
I take it you are all caught up with windows updates? Some updates have prerequisites and so must install those updates before continuing with newer updates. If you have installed SP1 you should have most all the updates. I think only a few updates came out after SP1.
You can aslo go to windows updates and see what has been installed and what it is wants to install.