There are a lot of convenient export settings in Eksporteur.
Export Path. The main idea of this tool is that you don't need to specify export path each time you want to export something. Almost all engines out there use some kind of content folder that you use to put your content into.
Folder Per Asset simply creates individual folders for each asset. Every LOD gets placed in it like this:
and so on
Ignore hidden objects. This setting doesn't allow exporter to export hidden objects (the ones with disabled eye in outliner). It is useful when you don't want export supportive objects like booleans or parent objects, etc..
Ignore hidden collections. Similarly, it simply prevents exporter to export hidden collections. Keep in mind that (at least for now) exporter ignores only hidden_viewport state, not hidden_render and other outliner modes.