When we were there a few weeks ago they had that boat dock closed off for some reason (can't remember why at the moment) and the boat from POR had to dock at Pleasure Island. Don't know if that has since changed in the past few weeks or not.
The boat from POR/POFQ does dock near Rainforest Cafe and Captain Jack's Restaurant (someone is missing a good opportunity there for a Pirates tie-in).
Back in May, from the 1st through the 25th, that dock was being refurbished, so the POR/POFQ boats were temporarily docked at Pleasure Island. Since that work should be completed by now, the boats should be docking near Rainforest/Captain Jack's again.
Thanks! I remembered seeing the signs but couldn't remember what they said. We were there May 10-17 so that explains why it was closed during that time.