I think patience is the order of the day. I refreshed several times during the course of the day and it eventually appeared. Presumably it is being phased.
The update said it did not like my plug-ins, disabled them, and then deleted all my Smart Collections so I have reverted to 9.4 for now. I am going to disable and remove the offending plug-ins first then try again to see if it still deletes my Smart Collections.