It is found in the mountains of north-western Burundi, eastern Democratic Republic of the Congo, and western Rwanda.

[1][3][4] The specific name bequaerti honours Joseph Charles Bequaert, a Belgian botanist, entomologist, and malacologist[5][4] and who collected the holotype from Mount Vissoke.

The lower parts vary from almost immaculate white to having few drown spots to dusky mottling or vermiculation.

[2][4] Phrynobatrachus bequaerti lives in montane forests, grasslands, and wetlands at elevations of 2,400–3,000 m (7,900–9,800 ft) above sea level.

It seems to be common in suitable habitat, although populations appear to be declining, and only a single specimen was found from the Nyungwe Forest National Park during surveys in 2010–2011.