I use Obsidian to map information in the organisational and business domains.
I like to create and organise notes by ‘subject type’ - Person, Organisational Unit, Product, Project, Event and so on. I have about 10 of these high-level categories as folders.
Folders for Concept and Zettel capture the less easily-categorised notes.
I also have folders for Journal, Inbox and a couple of others.
Finding this structure is part of the knowledge work for me. I don’t find it awkward or cumbersome to use.
I also have a knowledge map in Roam which is more expansive and free form. That tool doesn’t permit folders, which suits me for the way I use it.