This isn't unheard of, however the devs have said it has something to do with the ping of players in a multiplayer game. So most likely one of your connections deteriorated during the pause, rather than the pause being the cause.

I won't claim to fully understand why it happens, however typically after a half an hour, the issue resolves itself. If you're only playing with human players its not too bad, you all have the same situation. If you're comp stomping I guess that can be quite annoying, as the AI isn't really affected, but it is only AI.