I’m the author of the Favicon by RealFaviconGenerator plugin.
Just to follow up: the plugin v1.2.10 fixes the issue.
The issue can caused by a early call to is_super_admin. This function was called to decide if some action registrations were necessary or not. The fix was to move all these to a function called upon the init action. No more warning!
John, would you confirm you don’t have the warning anymore?