| Penalties | Club | VS Club | Date | |
|---|---|---|---|---|
| 8 | Cheetahs | Western Stormers | 18-03-2006 | Match details |
| 7 | Lions | Chiefs | 17-02-2006 | Match details |
| 6 | Crusaders | Blues | 04-03-2006 | Match details |
| 6 | Bulls | Brumbies | 17-02-2006 | Match details |
| 5 | Highlanders | Crusaders | 11-02-2006 | Match details |
| 5 | Western Stormers | Brumbies | 24-02-2006 | Match details |
| 5 | Sharks | Brumbies | 11-03-2006 | Match details |
| 5 | New South Wales | Brumbies | 16-04-2006 | Match details |
| 4 | Queensland Reds | Western Force | 11-03-2006 | Match details |
| 4 | Blues | Hurricanes | 10-02-2006 | Match details |
| 4 | Hurricanes | Bulls | 17-03-2006 | Match details |
| 4 | Chiefs | Brumbies | 25-03-2006 | Match details |
| 3 | Brumbies | Highlanders | 06-05-2006 | Match details |
| 3 | Western Force | Crusaders | 21-04-2006 | Match details |
