Did you open the app after the installation of the update? Or, instead of opening it, delete the notification that the update has been carried out? If not, it is normal that the info point on the F-Droid widget still appears.
I would suggest you flash the system anew and let iodé install F-Droid and the other standard apps. Your report sounds very unclear to me and I assume that some “improvements” were made that were not really helpful …
EDIT: I found my own instruction here and wonder what you might see if looking into it?