Two guys cleaned up big at Aqueduct Saturday night — robbing the Queens racetrack at gunpoint and making off with as much as a quarter-million dollars.

The brazen bandits, who were being sought Sunday morning, pulled the heist at around 10 p.m. Saturday, some four hours after the tenth and last race of the day, swiping “a lot of money,” according to an Aqueduct employee.

A police spokeswoman told The Post that the two robbers wore surgical masks and that the robbery occurred at the racetrack, not at the adjacent Resorts World Casino, which was open at the time.

“I was working upstairs when it happened. I didn’t see it,” the employee told The Post. “But I heard he stole a lot of money.”

Cops were swarming at the track early Sunday, inside Aqueduct’s “camera room,” where they reviewed security footage and interviewed witnesses.

Meanwhile, panicked racetrack employees huddled out in the parking lot.

“I just came into work and there are cops everywhere,” said one security guard. “There’s more s–t going on here tonight than you can believe, I don’t know what the f–k is going on.”

Officers were also searching the trash bins at the racetrack entrance with flashlights, apparently looking for clues.

Police didn’t immediately detail how much cash was robbed, although police radio transmissions indicated cops believed the pair had stolen $250,000.