Thomas thanked her competitors and joked that she may now move to the North Island. She was the only South Islander in the final three.
The host of the TV3 show, Sara Tetro, said she was incredibly proud of all three finalists.
The win came after a controversial week where Wypych found herself at the centre of a media storm over revelations that she had driving convictions, then photographs emerged of her apparently with cannabis.
Last night's show, titled Good Versus Evil, was classic World showmanship, with some models sitting in hair and makeup for 6 and a half hours.
"All three girls have been put through a gruelling journey with the show, but don't believe the artificial nature of television," said Hooper.
"You may have won the show but that isn't a guarantee that you will make it as a model. They all have the potential to, but you have to have the drive to move beyond the show and the baggage of the show."
Thomas' prize includes a contract with Tetro's agency 62 Models, a Ford Fiesta car, a one-year contract with CoverGirl, an eight-page editorial in Cleo and an all-expenses paid trip to Paris.