That's true, to an extent. System Restore files can re-infect your computer, but only if you use the System Restore feature. Otherwise, the files aren't active and aren't accessed by any programs. I don't tell users to shut off System Restore during the cleaning process because if something goes wrong and they need to use System Restore, they're out of luck. An infected restore point is better than no restore point at all. However, once a user's computer has been confirmed as clean, then I ask them to turn off System Restore, reboot, and then turn it back on and create a fresh clean restore point.