I have enabled WPMUDEV dashboard FYI.
Just recently went to https siteway the primary domain and one subsite on a WP multisite install.
http://screencast.com/t/8Z3QuA4QU (when I save https://…and click save inthe site network>settings area in goes to a 404 and does not save like this http://screencast.com/t/O7EAuVsZ (this one is a subsite).
The PRIMARY domain of the WP multisite is fine: http://screencast.com/t/Ojlps5yLD
Please let me know…