Rent a boat for your tour. The primary goal is whale watching and not paddling.
We whale watched from a fat double kayak in Alaska. At home you wouldn't catch me remotely in the same kayak. But I was able to focus on the whales from my stable seat.
Leave your boat home. It was meant to do most of your paddling perhaps; certainly not all of it.
If you insist on bringing your boat be aware that you must carry some safety gear per Canadian law.. Better to rent..they will have it.
Canoe Pack Liner
PFD's (Life Jackets)
Touring Kayak Paddles
Dock & Launch Systems
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