| Round | Overall | Player |
|---|---|---|
| 1 | 10th | 1B Prince Fielder Mil |
| 2 | 15th | SP Johan Santana NYN |
| 3 | 34th | 1B Derrek Lee ChN |
| 4 | 39th | SP Josh Beckett Bos |
| 5 | 58th | RP Jon Papelbon Bos |
| 6 | 63rd | RP Mariano Rivera NYA |
| 7 | 82nd | 2B Ian Kinsler Tex |
| 8 | 87th | OF Vernon Wells Tor |
| 9 | 106th | OF Chris Young Ari |
| 10 | 111th | 1B Jarrod Saltalamacchia Tex |
| 11 | 130th | SP Dontrelle Willis Det |
| 12 | 135th | 3B Mike Lowell Bos |
| 13 | 154th | OF Jermaine Dye ChA |
| 14 | 159th | SP Andy Pettitte NYA |
| 15 | 178th | SS Khalil Greene SD |
| 16 | 183rd | OF Matt Kemp LAD |
| 17 | 202nd | RP Carlos Marmol ChN |
| 18 | 207th | C Ivan Rodriguez NYA |
| 19 | 226th | 3B Josh Fields ChA |
| 20 | 231st | SP Chris Carpenter StL |
| 21 | 250th | 3B Ty Wigginton Bal |
| 22 | 255th | SP Homer Bailey Cin |
| 23 | 274th | OF Jay Bruce Cin |
| 24 | 279th | SP Shaun Marcum Tor |
| 25 | 298th | RP Jonathan Broxton LAD |
| 26 | 303rd | SP David Price TB |
| 26 | 303rd | SP David Price TB |
| 27 | 322nd | OF Xavier Nady NYA |
| 28 | 327th | C David Ross Cin |
| 29 | 346th | 1B Nomar Garciaparra LAD |