Can you show us a screenshot of the popup, maybe if you can do that or describe the comments in the popup, we can narrow it down.Did you flush out the restore points, sometimes malware will reside in a systemvolumeinformation point and each time you boot will rise like the phoenix, just waxing a little here... but you would be surprised at what get's stored in a System Restore point...addons/plugins and even though you may have thought you deleted them, they are actually still there,also it has been seen that quarantine items from scans (Adaware/Spybot Antivirus) will be stored in a system restore point.