We want to visit The Baths as well but we are thinking of just using Speedy's ferry/taxi package instead of a Disney excursion or chartering a boat. Sounds like there is a short hike in when you arrive by tax which I think our family will enjoy. If anyone has tried that please let me know how it went!
My understanding is that if you are arriving at The Baths by boat, it's easier to swim in than to hike in, but on the off chance it is a windy/wavy day, boat tours are canceled.
We aren't going until 2017 and I am just at the beginning of the planning process so I may have this all wrong, hopefully someone will correct me if that's the case.