September in Salzburg is the cloudiest month of the year. In September, the weather in Salzburg is typically warm. Average daily high temperature in September is about 18 degrees above zero. On average, Salzburg has 15 rainy, 9 partly cloudy, 4 sunny, and 2 cloudy days in September. The rains are usually heavy. September as well as January, February, March, and April is considered the most uncomfortable time to visit Salzburg.