Generally if it docks, even if it gives a red light, it is in the system, and you're fine. If it won't dock you can/have to keep riding it though. They'll usually waive any overage fees (usually automatically).
But I couldn't keep riding it, because it was semi-docked, stuck in the dock without thinking it was there. And I have the notification saying it didn't dock. And they won't return my calls. This is frustrating.
So it docked in the dock without a light going on? Hmm. Haven't replied to emails either?
They solved it, apparently it docked fine and didn't register.