Its most prominent exhibits are replicas of Christopher Columbus's boats for his first voyage to the Americas, the Niña, the Pinta, and the Santa María.

After they had been used in all manner of activities—including being used in filming 1492: Conquest of Paradise[3]—the Andalusian Autonomous Government acquired the replicas as part of the project Andalucía 92.

One of the featured exhibits is an Audio-visual production about half an hour in length, told from the point of view of the sailors who made the voyage.

The replicas were fashioned in the fishing port of Isla Cristina in western Huelva province as part of the celebrations of the fifth centenary of the Discovery of the Americas, and were the principle motive to create the Wharf of the Caravels.

Situated near the dock is the Barrio Medieval, a reproduction of a medieval port neighborhood, reconstructing the environment in which common people lived around the time of the voyage of discovery, by means of such elements of daily life as a market, a pottery factory, and numerous carts, and a recreated tavern where museum-goers can buy food and drink.

On the one side is a cottage with wood framing and reed walls; on the other, the people living on the island are represented by statues, representing people going about such ordinary activities as fishing or cooking; various objects of daily life are also on display, as are replicas of fauna typical of the Caribbean, including tortoises, parrots and various species of fish.

[12] In 2003, the Spanish folk metal band Mägo de Oz used the museum for the photo session of their album Gaia, in which they appear dressed as pirates.