Your machine should be rebooted at frequent intervals otherwise updates wont register correctly and often internal maintenance wont complete unless you do. If you are still worried it would have been better to simply repons with this on that original thread, but no matter. Why don't you run Hijackthis and post its log on specialist forums as directed in the last link in my signature below. Scroll down, it's nearer the bottom of that page.
They will tell you what is wrong.