| Round | Overall | Player |
|---|---|---|
| 1 | 4th | 2B Chase Utley Phi |
| 2 | 21st | 1B Carlos Pena TB |
| 3 | 28th | OF Hunter Pence Hou |
| 4 | 45th | RP Francisco Rodriguez LAA |
| 5 | 52nd | SP Aaron Harang Cin |
| 6 | 69th | 3B Ryan Zimmerman Was |
| 7 | 76th | OF Jason Bay Bos |
| 8 | 93rd | RP Trevor Hoffman Mil |
| 9 | 100th | SP Joe Blanton Phi |
| 10 | 117th | OF Pat Burrell TB |
| 11 | 124th | SS Julio Lugo Bos |
| 12 | 141st | SP John Lackey LAA |
| 13 | 148th | SP Tom Gorzelanny Pit |
| 14 | 165th | C Jason Varitek Bos |
| 15 | 172nd | SP Tom Glavine Atl |
| 16 | 189th | 1B Kevin Youkilis Bos |
| 17 | 196th | OF Gary Matthews Jr. LAA |
| 18 | 213th | SP Gil Meche KC |
| 19 | 220th | 3B Casey Blake LAD |
| 20 | 237th | OF Aaron Rowand SF |
| 21 | 244th | SP Kyle Kendrick Phi |
| 22 | 261st | SP Greg Maddux SD |
| 23 | 268th | C Carlos Ruiz Phi |
| 24 | 285th | SP Carlos Silva Sea |
| 25 | 292nd | SS Yuniesky Betancourt Sea |
| 26 | 309th | SP Scott Olsen Was |
| 27 | 316th | 1B Casey Kotchman Atl |
| 28 | 333rd | 2B Mark DeRosa Cle |
| 29 | 340th | SP Jon Rauch Ari |