That would stop the folders loading at all if they were remembered from a previous session, until you clicked the option to load them when you wanted to. It wouldn't stop change notifications, so it shouldn't matter here.
Are changes in those folders showing up OK in other software, or is the problem system-wide?
Have you launched the whole Opus process as admin (not just used the Admin button in Opus to elevate a single window)? That can prevent notifications from reaching Opus.
If it's only Opus that is affected, please try the suggestions and diagnostics here: