Like some one else has mentioned you have pretty much visited all the zoos/aquariums in the area. Jacksonville is at least a six hour drive.
Lowry, Florida state aquarium and Busch are at least four hour drives. Any orlando area zoos (DAK, central FL) are going to be three and half to four hours. Two places you didn't mention that are with in three hours driving are Brevard Zoo and two hours from Naples Zool. I have been to Brevard Zoo and even though its small I liked the exhibits and collection. Check out their website. I have not been to Naples so I have no comment but it is closer to you. Personally I would go back to Miami Zoo but I have only been there once.
I should have mentioned Lowry, Florida St Aquarium, Busch, DAK and Central FL because I have been to them. I've also been to the zoo in Naples, although it was still Jungle Larry's then. I haven't gotten to Brevard yet, hopefully this time.
I have to disagree about my having visited all in the area - I've done some research and turned these up (keep in mind that I'm interested in all places displaying live animals, except strictly domestic):
Sunken Gardens - St. Petersburg
Big Cat Rescue - Tampa
Museum of Science & Industry - Tampa
Pier Aquarium - ST. Petersburg
Jungle Gardens - Sarasota
Mote Aquarium - Sarasota
Pelican Man's Bird Sanctuary - Sarasota (closed)
Brevard Zoo - Melbourne
Gatorland - Orlando
Back to Nature Wildlife Refuge - Orlando (free)
Jungle Adventures - Christmas (near Orlando)
Reptile World Serpentarium - St. Cloud (near Orlando)
Gatorama - Palmdale
Naples Zoo - formerly Jungle Larry's
Conservancy Nature Center - Naples
Gumbo Limbo Nature Center - Boca Raton
Loggerhead Marinelife Center - Juno
Museum of Science - Miami
Everglades Safari Park - Miami
Wootens Alligator Park - Ochopee - very bad reviews
Everglades Aligator Farm - Florida City
John Pennekamp State Park - Key Largo
Dolphin Research Center - Grassy Key
Crane Point Museum & Nature Center - Marathon
Florida Keys Wild Bird Sanctuary - Tavernier
Florida Keys Eco-Discovery Center - Key West
Now to narrow it down...