I've been building out a bunch of Win32 apps and I've run into issue with the Intune Management Extension not updating the .bin files in C:\Program Files (x86)\Microsoft Intune Management Extension\Content\Incoming after I've updated the .intunewin file in the Intune console. Even after several IME service restarts, re-upload content, etc. the file was not updating which means my changes were not reflected on the client. I had to give myself permissions to the .bin file so I could delete it, restart the service, the file was re-downloaded and then my changes were reflected.