The park encompasses the western, coastal part of Flores Island, the islands of Komodo, Padar, and Rinca, 26 smaller islands, and the surrounding waters. The terrain of these islands is rugged, with hills not exceeding 735 meters.
The park has one of the driest climates in Indonesia, with high daily temperatures of about 40 degrees Celsius in the dry season (May to October), and rainfall of 800 to 1000 millimeters.