Pakundia is located at . It has 39,924 households and total area . It is bounded by the Old Brahmaputra and Gafargaon to its west, Kapasia to its southwest, Manohardi to its south, Katiadi to the southeast, Kishoreganj Sadar to the north, and Hossainpur to its northwest. The Old Brahmaputra is the main river of Pakundia. Inside the upazila, another river named Singua flows from Bill Moisber through Kaliachapara and joins Ghorautra river with Nikli in the Bhati area of the district. Other important bodies of water in Pakundia include the Narsunda River, Banar, Mangalahat as well as the beels of Padmakuri, Bhara, Kahetardia, Chaityakabali, Baranala, Bejurnala, Naothaghya and Digha.
