Ponda formed part of the Novas Conquistas or the “New Conquests” of the Portuguese. It was ruled by the Sonde Rajas under the Vijaynagar Kingdom or the Bijapur Sultanate. The territory of Ponda was not under Portuguese rule in the 16th Century and hence was seen as a safe haven by the Hindus fleeing persecution by the Jesuits and Portuguese. The forests of Ponda were ideal places for Hindus to form make shift temples with the Idols they had salvaged from the broken temples of Sashti (Salsette).

These make shift temples were slowly renovated as the Hindus prospered again and now most of the Major Hindu temples in Goa are found here. The Portuguese eventually took over the area in 1791 from the Raja of Sonda along with Quepem, Canacona and Sanguem. It began as an administrative center with the establishment of administrative offices and court and soon became a commercial center.

Most of the area known as Ponda today was a part of “Quela” village. However religious zeal of the Portuguese had ebbed by the 18th century and Portugal itself had seen many political and religious changes due to the prevailing inquisition. Therefore Ponda continued to have a Hindu Majority even during the Portuguese rule.