Meru Betiri National Park has a varied topography reaching from a plain coast to highlands with an altitude of almost 1,200 meters. The tallest mountains within the park are Mount Gamping (538 m), Mount Butak (609 m), Mount Sukamade Atas (801 m), Mount Gendong (840 m asl), Mount Mandilis (844 m) and Mount Betiri (1,192 m). The topography along the coast is generally hilly to mountainous. There are only few sandy plain coasts, most of them located in the west, such as Rajegwesi Beach, Sukamade Beach, Permisan Beach, Meru Beach and Bandealit Beach. Some rivers across Meru Betiri NP are Sukamade River, a perennial river, Permisan River, Meru River and Sekar Pisang River that flow to the South coast.
The Meru Betiri area is influenced by monsoon wind. During November to March, the westerly wind brings rainfall to the area, whereas the dry season occurs during April to October. The average annual rainfall is between 2,300 and 4,000 mm, with 4 dry months and 7 wet months in average