Another tool, that I make use of in larger projects, is to right-click on any major binder item that would serve as a keystone for visual navigation, and select “Show as Binder Separator” (around 3/4 of the way down). This will add a little accentuation to the item and make it easier to see when scrolling rapidly through a list.
But another thing I do is reserve folders only for major breaks. Folders in Scrivener are a different icon, really. They are the same things as text sections, and that is especially true if you go into the Behaviors: Folders & Files settings tab, and switch Treat all documents with subdocuments as folders on. My binder lists tend to be a sea of page icons, with the much bolder blue folder icons used at bigger breaks. And then I’ve got the divider setting for the even bigger breaks, offering a bit of a visual layering of call-outs for the eye to find.
There are other reasons I like using files to outline, almost exclusively you might say, which I go into in this post.
Really though, the biggest answers to this question probably sit outside of the binder. Scrivener has a rich toolkit for navigation and discovery, such that I very often almost completely collapse the binder (with +1k items you really have to), and make use of split views for deeper navigation, or the quick search tool to jump from one section to another directly, by name. The binder then becomes a very high level tool. The forum is filled with threads on these topics though, so it might be better to search outward from here than go over them all again (we try to tag such threads with project_navigation).