I have several custom entities as part of a module. When I visit /admin/structure, one of the entities is not listed in the groups of setting, or in the lists. However, if I manually type, /admin/structure/{entity}/settings/fields, I can manage the fields, form and display. However, the “Settings” tab is missing.

Similarly, I can manually type /admin/structure/{module}/{entity} to see the entity list, but the link is missing. The entity list is missing the button to add a new entity, but manually typing /admin/structure/{module}/{entity}/add brings up the correct form, and the form work.

It appears the routes are present, but something is preventing some of the links from being displayed. There are no errors in the recent log messages.