<An error occurred while retrieving package metadata for \'bootstrap.3.3.5\' from source \'nuget.org\'. ========== Finished ==========
My problem was due to outdated Package Manager. Go to VS menu Tools > Extensions and Updates > Updates and check if there is no updates for NuGet Package Manager. Installing the latest version solved the problem for me.
PS: Removing package reference as was suggested by Hrvoje Matić, cures the headache not by curing it but by amputating your head - those package will not be manageable anymore.