The 1999–2000 Biathlon World Cup was a multi-race tournament over a season of biathlon, organised by the International Biathlon Union.

The season started on 2 December 1999 in Hochfilzen, Austria, and ended on 19 March 2000 in Khanty-Mansiysk, Russia.

It was the 23rd season of the Biathlon World Cup.

Below is the IBU World Cup calendar for the 1999–2000 season.

Following notable biathletes retired after the 1999–2000 season: