The 1966 NCAA University Division Cross Country Championships were the 28th annual cross country meet to determine the team and individual national champions of men's collegiate cross country running in the United States.

All NCAA University Division members were eligible to qualify for the meet.

In total, 25 teams and 189 individual runners contested this championship.

The individual championship was won by Gerry Lindgren, from Washington State, with a time of 29:01.04.

Lindgren's time would hold until 1969, when he himself would break it during his senior year.