Following some links from the wiki page and I stumbled across the following in regards to overriding (may already be known, but new to me):
Changes to automatically created INI files are reverted by Steam when
validating the local game cache. User defined INI files can be used to
prevent this. Settings defined in a user defined INI file override
settings in a regular INI file.
Used by the game
- My Documents\My Games\Skyrim\SkyrimCustom.ini overrides Skyrim.ini
- steam\steamapps\common\Skyrim\SkyrimEditorCustom.ini overrides SkyrimEditor.ini