The first people of Pototan were the family of Datu Ramon, grandson of Datu Puti, a Malay from the town of Dumangas. They first settled at Barangay Naslo, which was formerly the poblacion. In that place was found a luxuriant growth of trees called "putat", after which the place was subsequently called "Kaputatan" or "place of many Putat trees." However, due to its hilly terrain and poor water supply, they decided to move nearer the bank of the Suage River, now called Pototan. In the middle of the 16th century, the Chinese traders arrived in Pototan.
Spanish era
The arrival of the Spaniards in 1593 sparked new changes in the socio-economic and political life of the natives. It was the start of a new era, the natives were converted to Catholicism through the efforts of Augustinian Friars. The settlement was subsequently made into a Parish. Education, though at the onset only for the privileged few, was introduced. The name "Kaputatan", which the Spanish have difficulty pronouncing, was changed to "Pototan". The Spanish built roads and bridges. Don Tomas Sajen and Don Escribano supervised the construction of the Tribunal with the natives contributing the labor. The Tribunal withstood World War II and in the early 50s was modified into what is now the Western Visayas Hospital. In 1874, Pototanons began to run their own political affairs with the appointment of Don Juan Marcelo as the first Capitan Municipal. This form of government continued until the arrival of the Americans. During the incumbency of Capitan Municipal Braulio Peñaranda in 1891, there was a cholera outbreak. During the Philippine Revolution, Pototanons such as Teresa Magbanua and her two brothers, Elias and Pascual Magbanua took up arms and joined the revolution. The Americans arrived after Spain ceded Philippines to the United States in 1898. The remaining Spanish population fled to the hills together with many Filipinos including the last Gobernadorcillio, Don Maurillo Mendoza. He was later held prisoner by the Americans but subsequently named the first Municipal President.
American era
Under the Americans, the natives were granted the freedom of speech and worship. Education was liberalized; more and better roads and bridges were constructed. Improvements were also noticed in the economic, social and cultural life of the people. During the incumbency of Mun. President Maurillo Mendoza, the Pototanons again witnessed another unforgettable event: the burning of the entire half of the poblacion in November 1914. The cause of the fire is unknown. When the Philippine Constitution was ratified in 1935, another change in the town's local governance was introduced: the title of Municipal President was changed to Municipal Mayor. Santiago Puig was the first Municipal Mayor. He was succeeded by Mariano Peñaflorida in 1940. Peñaflorida served until September 16, 1942.
World War II
The coming of the Japanese during World War II spread chaos and fear among Pototanons. Mayor Peñaflorida continued to act as Mayor under the Free Revolutionary Government of Tomas Confesor while the Japanese Imperial Forces designated Tomas Ferrariz as Puppet Mayor.
Barangays
Pototan is politically subdivided into 50 barangays.