The issues with settings not saving has been resolved, and the build has been updated. Also, not unrelated, there were a few other issues with where things were stored, and those have all been fixed as well. Stats and achievements should now work in Windows(they were fine in Linux).
Windows bugs fixed, and uploaded to build.
Build and release context
Recorded Steam release date:
Within one calendar day of this post (UTC). The listed date does not establish an exact launch time.