The result also marks Brighton's first top-flight victory away from home since March 1983, as well as their joint-biggest away top-flight win, equalling their 3-0 victory at Crystal Palace in April 1981.
"I thought we were outstanding," Hughton told Sky Sports News. "A huge part of the game is how you defend and I thought we defended the crosses and made a lot of blocks.
"We certainly made the most of it. I'm as pleased with the clean sheet as I am with the goals. We used the ball well and nullified the qualities West Ham have got."
The result sees Brighton edge up into 10th place in the Premier League table.