From my understanding the Edge EE.msi is just a full package installer, as opposed to the downloaded style installers that are so popular these days. The end result is the same (no feature/restriction/option changes), it's just easier to deploy via push or in heavily restricted environments.
I first came across in when trying to install a browser on either an 08 or 12 server (i forget) that could not successfully run the usual downloader installer.
Now it's all I ever use, because it's just faster and easier to install.