As a family, we have done Atlantis beach break and the Glass bottom boat tour. Both were fine and we had a good time.
We were considering staying on the ship this time out but I booked the Graycliff chocolatier tour at a decent hour so we have time to get back on to break the family consecutive Aquaduck ride record.

When I was a CM (a long time ago) I sailed on the Magic and went to Atlantis and did the beach and DIG tour. And walked around downtown in the straw market as well.
And then there was the time I took my kids and Mom on a Carnival cruise to Bahamas and it stopped in Nassau and Freeport. We went to Atlantis but got back on the ship in Freeport after buying a couple of souvies.
If for some reason, the Aquaduck challenge does not happen in Nassau because it is too crowded, we will shoot for CC day to attempt it.
In January/February on the Fantasy we did not stop at CC (propulsion issues) so we had an extra sea day, which meant the record has not been challenged so far. My husband is chomping at the bit to outride my 14 year old.
Have a great time!