| Round | Overall | Player |
|---|---|---|
| 1 | 4th | 1B Ryan Howard Phi |
| 2 | 21st | OF Josh Hamilton Tex |
| 3 | 28th | OF Matt Holliday StL |
| 4 | 45th | DH David Ortiz Bos |
| 5 | 52nd | C Victor Martinez Bos |
| 6 | 69th | SP Daisuke Matsuzaka Bos |
| 7 | 76th | 1B Adam Dunn Was |
| 8 | 93rd | SS Troy Tulowitzki Col |
| 9 | 100th | SP Zack Greinke KC |
| 10 | 117th | SP Ricky Nolasco Fla |
| 11 | 124th | 2B Rickie Weeks Mil |
| 12 | 141st | SP Erik Bedard Sea |
| 13 | 148th | SP David Price TB |
| 14 | 165th | SP Aaron Harang Cin |
| 15 | 172nd | 3B Mike Lowell Bos |
| 16 | 189th | SP Randy Johnson Ret |
| 17 | 196th | SP Clayton Kershaw LAD |
| 18 | 213th | OF Rick Ankiel KC |
| 19 | 220th | 1B Troy Glaus Atl |
| 20 | 237th | 1B Carlos Guillen Det |
| 21 | 244th | SP Jordan Zimmermann Was |
| 22 | 261st | SS Edgar Renteria SF |
| 23 | 268th | 2B Kazuo Matsui Hou |
| 24 | 285th | SP Paul Maholm Pit |
| 25 | 292nd | SP John Smoltz Hou |
| 26 | 309th | OF Adam Jones Bal |
| 27 | 316th | 3B Scott Rolen Cin |
| 28 | 333rd | 1B Jeff Clement Pit |
| 29 | 340th | SP Rick Porcello Det |