Mark Zuckerberg's social network was named as the recipient of the first 'People's Special Achievement for Social Change', beating Twitter, YouTube, Kiva, and Change.org to the gong.
Webby award winners were selected by a judging panel featuring Twitter co-founder Biz Stone, Arianna Huffington and mobile phone inventor Martin Cooper. More than 1.5 million internet users from around the world voted in the affiliated People's Voice Awards.
The judges named Pinterest as the winner in the 'Social Media' category, while Google+ claimed the 'People's Voice' Webby in the same category. Facebook-owned Instagram was handed the Webby 'Breakout of the Year' accolade.
The Daily Beast won the prize for 'Best News Site', with the BBC website taking the 'People's Voice' award in the category. FactCheck.org was hailed as 'Best Political website', and The Onion as 'Best Humour Site'.
"This year's winners represent an amazing cross-section of the new and continuing trends we've seen across the Internet this year," said David-Michel Davies, executive director of the Webby Awards.
Bjork picked up the 'Webby Artist of the Year' award for Biophilia, which is billed as the world's first "app album". Louis CK was honoured as Webby 'Person of the Year' for his digital exclusive show Louis C.K. - Live at the Beach Theater.
Juliette Lewis and Graydon Sheppard's popular YouTube series S**t Girls Say earned them both 'Best Actress' gongs.
The winners will be presented with their awards at a ceremony at The Hammerstein Ballroom in New York on May 21.