AFAIK it has been doing that since 5.0, if not before. In 5.2 it still happens.
Just delete the Platforms/HoloLens directory from your Engine source. If you decide you need HoloLens in the future, you just copy that directory from new Engine source.
Very easy solution, no downside.
I literally just excluded HoloLens from my source code feed from Epic and haven’t had any issues with HoloLens ever since.