Hi. I remember linking collections with sub-collections, and when turning the sub-collections in the source file and updating the main scene, I would not see them anymore. Do I remember incorrectly? I am now turning collections in the source file, and the main doesn’t seem to “care” what collections are on and off in the source file.
Collection checkbox toggle is proper to a view layer of a scene.
That is ignored by linked collections like eye icon toggle proper to viewlayer.
Restrictions toggles respected by linking are Screen icon, Camera icon, etc…, proper to scene.
Toggles relative to display in ALL viewports or to render properties.