The 34-year-old superstar led all nominees heading into the show with 11 nods for her groundbreaking Lemonade album and short film.
And she quickly racked up the prizes, earning best choreography, best direction, best cinematography, and best editing for "Formation", which she performed as part of a show-stopping Lemonade medley.
"Formation" earned Beyonce the coveted video of the year title, which she dedicated to the residents of New Orleans, Louisiana, who have been struggling with severe flooding in recent weeks. Her best female video win was for "Hold Up".
Rihanna was another big winner at the VMAs, which she opened with the first of four performances during the New York show, singing hits "Only Girl" (In The World), "We Found Love", and "Where Have You Been."
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She later returned to the Madison Square Garden stage to belt out tracks like "Work", "Needed Me", "Stay," and "Diamonds" before she was presented with the prestigious Michael Jackson Video Vanguard Award by her frequent collaborator and rumoured boyfriend Drake.
They then shared a kiss on the cheek as Rihanna stepped up to accept the special Moonman award, which she celebrated as "such an amazing moment" in her career.
The Bajan star then went on to thank her longtime fans, saying: "My success, it started as my dream, but now my success is not my own; it's my family's, it's my fans, it's my country's, it's the Caribbean as a whole, it's women, it's black women.