| Round | Overall | Player |
|---|---|---|
| 1 | 5th | 1B David Ortiz Bos |
| 2 | 20th | OF Matt Holliday Col |
| 3 | 29th | 3B Aramis Ramirez ChN |
| 4 | 44th | SS Mike Young Tex |
| 5 | 53rd | OF Carl Crawford TB |
| 6 | 68th | SP Rich Harden Oak |
| 7 | 77th | SP Jeremy Bonderman Det |
| 8 | 92nd | 1B Richie Sexson Sea |
| 9 | 101st | SP Dan Haren Ari |
| 10 | 116th | SP Matt Cain SF |
| 11 | 125th | OF Torii Hunter LAA |
| 12 | 140th | SP Andy Pettitte NYA |
| 13 | 149th | OF Mike Cameron SD |
| 14 | 164th | 3B Edwin Encarnacion Cin |
| 15 | 173rd | 2B Orlando Hudson Ari |
| 16 | 188th | 3B Jorge Cantu Cin |
| 17 | 197th | RP Joe Borowski Cle |
| 18 | 212th | C Jason Varitek Bos |
| 19 | 221st | C A.J. Pierzynski ChA |
| 20 | 236th | OF Carlos Quentin ChA |
| 21 | 245th | SP Ian Snell Pit |
| 22 | 260th | SS Khalil Greene SD |
| 23 | 269th | SP Vicente Padilla Tex |
| 24 | 284th | SP Adam Loewen Bal |
| 25 | 293rd | 3B Kevin Kouzmanoff SD |
| 26 | 308th | 1B Shea Hillenbrand LAD |
| 27 | 317th | SP Jeff Weaver Sea |
| 28 | 332nd | SP Miguel Batista Sea |
| 29 | 341st | RP Akinori Otsuka Tex |