The log is clean, can you describe the popup as it maybe a random internet popup.
Also I would like you to download, install and try Mozilla Firefox Browser -
[Only Registered and Activated Users Can See Links. Click Here To Register...] Built with your security in mind, Firefox keeps your computer safe from malicious spyware by not loading harmful ActiveX controls. A comprehensive set of privacy tools keep your online activity your business. In addition It has built in popup blocking . A must today.
That way by using it with IE closed you shouldn't get any popuips.