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Player | Position | Former Team | New Team | Transaction date | Notes | |
| 1. | Gload, Ross | 1B | PHI | --- | --- | --- | |
| 2. | Quinlan, Robb | 1B | LAA | PHI | 1/06/11 | Minor league contract | |
| 3. | Sweeney, Mike | 1B | PHI | --- | --- | Retired | |
| 4. | Tracy, Andy | 1B | PHI | PHI | 11/25/09 | Minor League contract | |
| 5. | Polanco, Placido | 3B | PHI | MIA | 12/20/12 | One-year contract | |
| 6. | Bako, Paul | C | PHI | --- | --- | --- | |
| 7. | Cash, Kevin | C | BOS | PHI | 11/19/10 | Minor league contract | |
| 8. | Hoover, Paul | C | PHI | BOS | 1/26/11 | Minor league contract | |
| 9. | Schneider, Brian | C | PHI | --- | 1/29/13 | Announced retirement | |
| 10. | Bruntlett, Eric | IF | PHI | WSH | 12/28/09 | Minor League contract | |
| 11. | Duffy, Chris | OF | MIL | PHI | 12/11/09 | Minor League contract | |
| 12. | Guzman, Freddy | OF | NYY | PHI | 1/26/10 | Minor league contract | |
| 13. | Nix, Laynce | OF | WSH | PHI | 12/08/11 | Agreed to two-year contract | |
| 14. | Pierre, Juan | OF | PHI | MIA | 11/19/12 | One-year contract | |
| 15. | Sullivan, Cory | OF | HOU | PHI | 2/24/11 | Minor league contract | |
| 16. | Baez, Danys | RP | PHI | --- | 2/27/12 | Announced retirement | |
| 17. | Bass, Brian | RP | PIT | PHI | 1/06/11 | Minor league contract | |
| 18. | Contreras, Jose | RP | PHI | PIT | 2/23/13 | Minor league contract | |
| 19. | Eyre, Scott | RP | PHI | --- | --- | Retired | |
| 20. | Lopez, Rodrigo | RP | CHC | PHI | 1/12/13 | Minor league contract | |
| 21. | Taschner, Jack | RP | PHI | PIT | 1/04/10 | Minor League contract | |
| 22. | Halladay, Roy | SP | TOR | PHI | 12/16/09 | Part of four-team trade between TOR, PHI, SEA, OAK | |
| 23. | Lee, Cliff | SP | TEX | PHI | 12/15/10 | Five-year contract | |
| 24. | Martinez, Pedro | SP | PHI | --- | --- | --- | |
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