September in South San Francisco is the warmest month of the year. In September, the weather in South San Francisco is typically warm. Average daily high temperature in September is about 19 degrees above zero. On average, South San Francisco has 17 sunny, 11 partly cloudy, 1 rainy, and 1 cloudy day in September. The rains are usually light. September as well as August is considered the most comfortable time to visit South San Francisco.