We went over to Atlantis twice for 3 day getaway in the last couple years and the last cruise last year stopped in Nassau. The town looks like it always does. We took a tour around the island and then finished at the Pirate Museum. It was a great day. Make sure to stop for lunch at the Cafe Skans on at the corner of Bay Street and Fredricks Street just up from the cruise terminal. Wife loves the conch fritters and they have the best grouper fingers. Very nice pleasant people with reasonable prices and great food.
Water/beaches can be rough but with the amount of different beaches around the island you can always find some calm water. Hope this helps a little.
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