The Stilton, which is made in Nottingham, was chosen from 2,760 entrants.
Cropwell Bishop's win was a sign that makers of Stilton cheese were producing an excellent product, said British Cheese Board secretary Nigel White. "For your cheese to go through that pyramid of judging and come out on top is an absolutely fantastic achievement."
The Reserve Supreme Champion award went to Lockerbie Creamery for its Vintage Cheddar, and the Supreme Champion Overseas award went to Swiss cheesemaker Von Muhlenen for its Gruyère.
"We'll be harnessing retailers' support alongside that of delis and other independent retailers to showcase the winners to their customers," said awards chairman Richard Paul.