Do you ever use any of them or get back to them? I used to do that too on a smaller scale but realized after a while that I don't really need them to find things as the browsers address bar is usually enough and worst case I can fall back to a web search.
I never really had a case where I couldn't find something again that I would've found through my bookmarks as these are usually not tagged well or there's not enough information in the URL / title of the bookmark to have a big surface area for a fuzzy search.
It took me a while to realize that but I noticed that it's very refreshing to keep less things around and try to hoard them (bookmarks, browser tabs, downloaded movies, shows, music) like I did in the past. After observing it for a while I realized that it never happened that I couldn't find something again or re-download if necessary.
I use my bookmarks constantly and I have a well structured folder hierarchy so I don't run into the problems you describe. There is no downside to having lots of bookmarks. It isn't the same as a physical space in which the 'clutter' or 'less is more' ideologies may have merit.
I respect that. It doesn't work for me but it's an interesting thought. Props on being able to arrange it successfully. Says some positive things about you by extension.
I only keep bookmarks that are really important or used often, the latter which doesn't really make sense but when I want food I open up my Food folder and looking at places around me helps me pick something.