Alligator Reef Lighthouse is a prominent reef system centred around a black-and-white iron lighthouse structure. The site features a 19th-century shipwreck located nearby. Depths range from 2 to 27 metres, with an average depth of 7 metres, making it suitable for beginners. Access is by boat only, as the site is situated 7,400 metres from the shore. Visibility varies between 7 and 30 metres. Water temperatures fluctuate between 24C and 31C throughout the year. Hazards at this location include boat traffic, deep sections, sharks, and sharp coral. Guided tours and boat charters are available for those visiting the area.

Alligator Deep is an offshore reef located 6500 metres from shore, requiring boat access. The site features a varied topography that drops from shallow sections down to 30 metres, with an average depth of 6 metres. The reef structure consists of hard corals, boulder coral, soft corals, and barrel sponges in the deeper areas. Divers and snorkellers can expect moderate currents and visibility ranging from 10 to 30 metres. Due to the potential for boat traffic, it is essential to remain vigilant and deploy a surface marker buoy during ascents. This site is best suited for intermediate divers and snorkellers.

Recovery Room is a shallow reef located at Alligator Reef, Islamorada. Reaching a maximum depth of 14 metres, the site is well-suited for beginner divers. The reef structure features a mix of hard and soft corals. Divers regularly encounter parrotfish, damselfish, angelfish, and snapper among the coral heads. Green sea turtles and moray eels are also frequently observed. Conditions are generally manageable with mild currents. Water temperatures range from 24C to 30C throughout the year, typically requiring only a 3mm wetsuit or skin suit. As this is a boat-access site located 1500 metres from shore, divers must remain vigilant regarding boat traffic during ascents and surface intervals.

Corona is a shallow reef site located at Alligator Reef, United States. Reached exclusively by boat, the site features depths ranging from the surface to 12 metres, with an average depth of 6 metres. Visibility typically spans 10 to 25 metres, and mild currents make it suitable for beginner divers. Divers should remain mindful of surge and swell, which can push swimmers toward sharp coral and rocks. Water temperatures are warm, fluctuating between 24 and 30 degrees Celsius throughout the year. Typical dives last approximately 50 minutes. Maintain neutral buoyancy to avoid contact with the reef structure and keep a safe distance from any sharks encountered.

Cindy's Corner at Alligator Reef features a combination of natural reef and artificial structures. Divers can explore this site at depths ranging from 0 to 14 metres, with an average depth of 14 metres. Conditions are generally comfortable, characterised by mild currents and visibility between 15 and 30 metres. This site is suitable for beginners, though caution is required to avoid contact with sharp coral and rocks. Boat entry is required to access the site, and typical dives last around 60 minutes. Water temperatures fluctuate between 24C and 30C throughout the year.

Crater is a deep reef site located 1500 metres offshore at Alligator Reef. The topography features a significant drop-off, with depths ranging from 35 to 60 metres. Divers should expect visibility between 15 and 40 metres, allowing for clear observation of the reef structure. Conditions are generally characterised by mild currents, though unpredictable surge and swell can occur. Due to the depth and potential for sharp coral and rock edges, this site is strictly for advanced divers. Access is by boat only, and night diving is permitted. Divers should maintain precise buoyancy control and plan gas consumption conservatively given the depth profile.

Kylie's Reef at Alligator Reef is a shallow marine site suitable for both divers and snorkellers. The reef structure sits at an average depth of 6 metres, with a range of 5 to 6 metres. Divers can observe various coral formations, including symmetrical brain coral, knobby brain coral, massive starlet coral, and elliptical star coral. The site supports a population of reef fish and invertebrates, such as crustaceans. Visibility typically ranges from 12 to 18 metres, and the area experiences mild currents. Access to this site is by boat only, and early morning departures are recommended for calmer surface conditions.

The Eagle is a deliberately sunk vessel resting on a sandy bottom at depths reaching 44 metres, with the shallowest sections of the superstructure accessible at 12 metres. This advanced wreck dive requires boat access and careful planning due to moderate currents, significant depth, and overhead environments. Visibility typically ranges from 10 to 30 metres. Divers should monitor nitrogen levels to manage narcosis and remain aware of boat traffic during ascents. Species recorded around this area include nurse sharks, great barracuda, green sea turtles, and various angelfish. Bull sharks are also present in the vicinity. Always deploy an SMB before surfacing due to heavy boat traffic.