I decided to open the disk usage statistics in Resource Monitor, and discovered that after closing notepad++.exe, even if there were no files open, a large write to the disk occurs. In the first second, the speed is approximately 4 MB/s, then less: 3 MB, 1 MB, 500 KB, 300 KB, 100 KB. And in total it writes like this for about a minute. I think the total write will be at least 30 MB.
notepad.exe writes to both files “e:\User\AppData\Roaming\Notepad++\config.xml” (which is 10 KB) and “e:\User\AppData\Roaming\Notepad++\session.xml” (which is 200 bytes).
I have the same problem with Classic Shell, but I decided to write about Notepad++, since it is easier to explain and test. Does your Notepad++ also writes to disk when closed? I'm afraid my Windows is broken.