We've restricted/enabled all IE 10 settings through group policy on Server 2012. We also created a package with IEAK for IE10 just to customize the favorites bar with our URLs. We have not disabled users to add/delete links in their favorites/favorites bar in group policy.
The issue is that after installing the IEAK IE10 customized package, we still don't see any URLs in the favorites bar.When group policy is not applied, the favorites bar is populated our URLs. There is something in Group policy that is blocking the URLs from appearing in the favorites bar, however we don't know which of the 50+ settings that we've set are the culprit. Again, users can manually add/delete links in their favorites without problems.