On the Manage Libraries page, the “Home” column checkboxes under “Manage Recommendations” should be disabled when the Library’s “Visibility” setting is set to “Exclude from home screen.” A line of text, or a tooltip, explaining why the settings are disabled would be helpful, too.
As it is, a user might make several selections in the Home column, forgetting that the library is excluded, and be frustrated when they find their changes are not reflected on the Home page.