My wife and I were in the parks today and while we were in line for Pirates (around 5PM), a Cast Member informed us there was a "technical difficulty" and that the ride would be back up in 15-20 minutes. They emptied all the boats and went through a full rotation (plus a few) without guests.
At 5:35 everything was back up. The only thing we noticed was that the donkey next to the 3 pirates when "Yo Ho" starts playing was missing. His door was completely closed.