Along with best series, the show also earned trophies for writing and directing.
But that's not all. Ty Burell and Julie Bowen took home the Emmys for comedy's supporting actor and actress.
Jim Parsons was named best actor for the second year in a row for "The Big Bang Theory."
After Melissa McCarthy of "Mike & Molly" was 'crowned best actress, she offered advice to other young hopefuls.
"If anybody tells you the odds are slim, just keep walking. Just do whatever the hell you want to do," she said. "They don't know what they're talking about."
In the drama category, "Mad Men" was named outstanding series for the fourth year in a row.
Drama's acting awards went to Julianna Margulies of "The Good Wife" and Kyle Chandler of "Friday Night Lights" in the lead categories.
Supporting nods went to Peter Dinklage of "Game of Thrones" and veteran actress Margo Martindale for "Justified."
"I don't know that I could have appreciated anything like this had I been 30. At 60, I am deeply grateful," Matindale said.
"The Daily Show with Jon Stewart" has won the Emmy for outstanding variety, music or comedy series for the ninth consecutive year.
Visit OnTheRedCarpet.com for photo galleries of tonight's show and a complete list of winners.
The Associated Press contributed to this report.