I think there is a known issue with setpoints in BasicUI and ClassicUI.
In the future it is way easier to deal with code if you paste it into your reply using code fences (How to use code fences) or if it won’t let you because you are too new to post something that big, use pastebin or github gists. A PDF is really hard to work with.
I don’t see any pattern with the sitemap definition for the ones that are not working. I don’t really have any other ideas. You can try to file an issue over at ESH (which is where Basic UI is implemented) but without more information that will let the developers reproduce the error I’m not sure anyone will be able to fix it. It is very odd behavior.