Thanks for clearing that up. I had the root kit scan ticked to ON as part of my daily scans. They happen in the middle of the night, so I never noticed how long they take. Just ran a manual scan with root kit scan turned off and it completed the scan in 8min 47 seconds.
When you say it takes a long time, what more time does it normally add? Like hours? If its not something that can be predicted, then I guess I could turn it back on just to see if its still scanning when I start using the computer in the morning. I've never really checked to see.