Ok, that makes sense. It’s looking like the problem is related to some idiosyncracies of the the7 theme. They have a crazy setup with encrypted settings that wind up dynamically writing files to the uploads directory. I can see what they were thinking, really, but it’s a challenging use case to deal with.
To answer your question, yes I’m using it through: wpackagist-plugin/ilab-media-tools
Thanks for the feedback! Looks like the plugin is behaving as intended.