I recently have started using the NuGet Package Restore option in all of my .NET projects. This is a great new feature that was enabled with NuGet version 1.6. I followed this blog post Cleaning Up Your Git Repository for NuGet 1.6 and saw my repository size shrink drastically, a very good thing.
However, I noticed that when I enabled Package Restore that Git was excluding my NuGet.exe file in the solution .nuget folder. This was based on my having a *.exe entry in my .gitignore file. I was able to manually add the file by issuing the command git add -F NuGet.exe from the git command line. This worked but I wanted to find a better way. I tried a few different entries in the .gitignore file unsuccessfully. Then today, I had this issue again and did some more research and found this Answer on StackOverflow about putting an additional .gitignore file in the .nuget folder and explicitly including all executables via a !*.exe line. This worked great.