It was Baddeley's first win on the PGA Tour, and the second straight year that Furyk was the runner-up at the Heritage Classic.
"I was talking with a friend of mine about trying to keep the trophy in Australia because Peter Lonard won it last year," said Baddeley, who missed the cut in 2001. "It's fantastic. It's great to keep it in Australia."
Furyk, who was tied with Baddeley after round three, finished at 14-under 270 after a closing 71. He had two bogeys among his last seven holes.