Loic Duval's time set in the opening qualifying session on Wednesday proved sufficient for pole as the Frenchman impressed ahead of his first Le Mans weekend as team-mate to experienced duo Allan McNish and Tom Kristensen.
Briton McNish, bidding for his third Le Mans triumph this weekend, said: "It has been a hard few weeks in preparation for this race but an Audi one-two-three in qualifying is the perfect start.
"There is no better place than starting a race from pole. Loic's lap time from Wednesday on a very dirty circuit was immense.
"We have a good balance on our Audi for race conditions. We all feel comfortable with our car - we're in good shape for the 24 hours despite weather conditions playing a big hand over the past two days."
With a sharp downpour and a slew of red flags interrupting Thursday's final qualifying session, Duval's best lap of three minutes 22.349 seconds around the 8.47-mile track was sufficient to seal Audi's third pole in a row and eighth in total at La Sarthe.
Duval's time was a full 1.3 seconds clear of the second-placed R18 e-tron quattro of reigning two-time Le Mans winners Andre Lotterer, Marcel Fassler and Benoit Treluyer. The third factory R18 of Lucas di Grassi, Oliver Jarvis and Marc Gene will start Saturday's race from third.
Audi's nearest challengers in the LMP1 class, Toyota, will no doubt be disappointed at the size of the gap to the top three.
Despite taking fourth on the grid, the number eight TS030 of Anthony Davidson, Stephane Sarrazin and Sebastien Buemi was 4.3secs off Duval's benchmark.
The OAK Racing Morgan-Nissan of Olivier Pla, Alex Brundle and David Heinemeier Hansson took pole in the LMP2 class with a last-gasp effort.
In the GTE Pro class, Rob Bell, Fred Makowiecki and Bruno Senna took pole in the number 99 Aston Martin, while Aston Martin was also fastest in the GTE Am, the number 95 car of Allan Simonsen, Kristian Poulsen and Christoffer Nygaard taking the honours.