The Waterberg falls within the summer rainfall region with a mid-summer (January) seasonality. The overall mean annual rainfall for Lapalala is estimated at 500 mm, but ranges from 400 mm in the low-lying area in the north to 600 mm on the higher-lying south-western border.

Mean minimum and maximum monthly temperatures are respectively 20°C and 20°C in July and 14°C and 30°C in January. Frost is common during winter months, with an average of 61 to 90 days of frost annually.

Lapalala also experiences between 5.1 and 7.5 lightning strikes per year per 100 ha.