I've 36k images in 267 folders.
You could uncheck "scan sub-folders" or leave it checked but not start with the root-directory.
Or maybe that other program would be better. I don't get a commission if you use the one I suggested. ^_^
This assumes, of course, that images aren't double-filed under completely separate shows.
Not always the case. I'm undecided whether to put this under Ghibli/Kiki or LWA.