Nongpoh's history is deeply intertwined with the ancient Khasi kingdoms (Syiemships) that governed the hills of present-day Meghalaya. The region, known as Ri-Bhoi, was historically populated by the Bhoi people, who adapted to the lower, warmer elevations compared to their kin in the upper Khasi Hills. For centuries, the area served as a natural buffer and a trading corridor between the Ahom and Assamese kingdoms of the plains and the hill tribal chieftains.
During the British colonial era, the route passing through Nongpoh was developed into a crucial cart road linking Gauhati (now Guwahati) to the colonial sanatorium and administrative center of Shillong. Nongpoh naturally evolved into a vital resting stage for British officers, traders, and travelers making the steep ascent by horse or cart.
Following India's independence and the subsequent creation of the state of Meghalaya in 1972, Nongpoh remained part of the East Khasi Hills district. Its most significant modern milestone occurred on June 4, 1992, when the Ri-Bhoi district was carved out of the East Khasi Hills to bring administration closer to the people. Nongpoh was designated as the district headquarters, sparking a wave of infrastructural and economic development that transformed it from a mere highway stop into a burgeoning town.

