I need to first point to the image below to explain a bit about what I find weird here:

I extracted the informacion from an ISO I from Nautilus I could only see two folders but from the terminal I can see the rest of the files and folders. This folders do not have the . character in from of them to hide them from plain sight. When I try to "Show hidden files" in Nautilus, Nautilus closes itself. It does not show the hidden folders or files.

Somehow they are hidden without using the normal dot in the beginning of the name. The have my user permission but no way of seeing them from Nautilus. I can interact with them but the fact that they appear hidden when I can see them inside the ISO and after extracting them they disappear is what confuses me.

What permission or setting makes this folders appear hidden and does not let Nautilus show them and like I said before, trying to show them with the "Show hidden files" option crashes Nautilus and exits it. Forcing me to have to open Nautilus again from the Launcher.