The news continues a tough year for the 19-year-old forward considered one of the fledgling club's most exciting prospects.
Patton underwent knee surgery in January and had to wait until the Giants' round 12 clash with Richmond to make his senior debut. He has since played seven games and kicked four goals.
Patton will undergo surgery on Wednesday to repair a small tear and laberal damage to his shoulder.
Fellow Giant forward Jeremy Cameron has also played his last game for this season due to a hip injury.
Cameron, 19, kicked 29 goals in 16 games.
The club expects both players to be fit in time for pre-season training in November.