I HAD this exact problem - "Closing 1 App . . .". When searching to resolve this annoying issue, I came across your thread and have read it end-to-end. I don't know if my solution will help because I believe mention of attached printers (hardware) is among
the many possible causes of the 'running app' message complicating shutting down or restarting one's system. I too labored over the Task Manager listings and some of the many other suggestions listed in your thread. Eventually, I turned to other explanations
that might cause this problem which began for me too only recently. I had done only one thing to my system lately - I attached a Brother label printer. As a test, I disconnected it and presto, when I shut down my system, the message was gone.
I'm no computer wizard by a long shot but the Windows updates were not the cause behind the arrival of the pesky 'running app' on my system. The cause was my installing and connecting the Brother label printer. To be more specific, I had a great Brother
label printer that I broke. Because I liked it so much, I bought another; same brand, same model. I unpacked it and hooked it up. I took the chance that it would work properly because it was identical to the previous one and it was employing the same drivers
and editing app. The printer worked and still works fine. BUT apparently something must have been amiss as the pesky "Closing 1 App . . ." message arrived when shutting down. I intend to uninstall the existing drivers and follow the expected installation
protocols and all should be well. I hope your efforts to resolve this issue on your system prove successful soon. Like you, I love technology - when it works.