I think the best concept for file management ever invented is the one used by the orthodox file managers (Double Commander, Midnight Commander, FAR etc. etc).
There are cases where a file is associated with directory, e.g. you export a web page and its contents are saved within a dedicated directory, and some languages will allow module.foo and module/submodules.
But those are odd cases and the insight that the file managers had was that folder navigation and file manipulation are two separate things. If you need to move a file, you always want to move it to another folder. All the files just get in the way. If you want to find a file, it's in a folder, it's not "between" two files.
Putting everything together is plainly nuts.
I use Q-Dir at work because I’m constantly managing files on four networked devices.
No affiliation, just a satisfied user.