Yes.. after installing the updaters from the new Windows Update, do the following..
open Internet Explorer, click on tools and click on Internet Options, click Advanced tab and uncheck the Automatically Check for Internet Explorer Updates.. click OK
Then go to Control Panel and click on System, Click on Automatic Updates and put dot into Turn Off Automatic Updates, then click OK.
This will make updating fron Windows Update manual..
However I have not ever found any update to break any application I ever had nor have I found any of my windows components work incorrectly, Except in 2003 with 1 security update for CD drives and security, that broke the Original SFC Single Player, however I soon posted a fix for SFC afterwords...
All other games worked just fine, it was only SFC to my knowledge that got broke with the update.
Hope that this helps.