| Round | Overall | Player |
|---|---|---|
| 1 | 7th | OF Grady Sizemore Cle |
| 2 | 18th | OF Carlos Beltran NYN |
| 3 | 31st | 2B Brian Roberts Bal |
| 4 | 42nd | DH David Ortiz Bos |
| 5 | 55th | 1B Adrian Gonzalez SD |
| 6 | 66th | OF Bobby Abreu LAA |
| 7 | 79th | C Victor Martinez Bos |
| 8 | 90th | SS Troy Tulowitzki Col |
| 9 | 103rd | OF Raul Ibanez Phi |
| 10 | 114th | RP Jonathan Broxton LAD |
| 11 | 127th | RP Brian Fuentes LAA |
| 12 | 138th | SP Mark Buehrle ChA |
| 13 | 151st | SP Javier Vazquez NYA |
| 14 | 162nd | 3B Edwin Encarnacion Tor |
| 15 | 175th | SP Gavin Floyd ChA |
| 16 | 186th | SP Michael Pelfrey NYN |
| 17 | 199th | SP Johnny Cueto Cin |
| 18 | 210th | RP Frank Francisco Tex |
| 19 | 223rd | 2B Clint Barmes Col |
| 20 | 234th | SP Joe Blanton Phi |
| 21 | 247th | 3B Chone Figgins Sea |
| 22 | 258th | DH Nick Johnson NYA |
| 23 | 271st | OF Jeff Francoeur NYN |
| 24 | 282nd | 3B Russ Branyan Sea |
| 25 | 295th | SP Kenshin Kawakami Atl |
| 26 | 306th | RP Kevin Gregg ChN |
| 27 | 319th | OF Adam Lind Tor |
| 28 | 330th | C Nick Hundley SD |
| 29 | 343rd | SS Jack Wilson Sea |