Duplicate trees in Umbraco CMS after uninstalling uComponents

I freaked out when I uninstalled uComponents and discovered that all content, media, settings, and developer trees had all been duplicated. After cleaning my solution and removing all dlls in the bin directory the trees returned to normal.

Umbraco packages throws error installedPackages.config is denied

This was happening on IIS7.5 and the error message said I should add ASPNET account to the security of the file. Instead (as I was using ApplicationPoolIdentity) I removed the Read-Only flag on the packages folder and this fixed my problem.