| Round | Overall | Player |
|---|---|---|
| 1 | 1st | 3B Alex Rodriguez NYA |
| 2 | 24th | 1B Ryan Howard Phi |
| 3 | 25th | 3B Aramis Ramirez ChN |
| 4 | 48th | SP Pedro Martinez NYN |
| 5 | 49th | OF Carlos Lee Hou |
| 6 | 72nd | SP Bartolo Colon LAA |
| 7 | 73rd | RP Billy Wagner NYN |
| 8 | 96th | RP Francisco Cordero Mil |
| 9 | 97th | OF Brian S. Giles SD |
| 10 | 120th | C Kenji Johjima Sea |
| 11 | 121st | SP John Patterson Was |
| 12 | 144th | SP Jon Garland ChA |
| 13 | 145th | OF Jermaine Dye ChA |
| 14 | 168th | SP Noah Lowry SF |
| 15 | 169th | OF Kevin Mench Mil |
| 16 | 192nd | 2B Placido Polanco Det |
| 17 | 193rd | SS Khalil Greene SD |
| 18 | 216th | SP Erik Bedard Bal |
| 19 | 217th | OF Aaron Rowand Phi |
| 20 | 240th | 1B Mike Jacobs Fla |
| 21 | 241st | RP Keith Foulke Cle |
| 22 | 264th | 2B Ian Kinsler Tex |
| 23 | 265th | SP Josh Towers Tor |
| 24 | 288th | 3B Corey Koskie Mil |
| 25 | 289th | C Jason LaRue KC |
| 26 | 312th | SP Kenny Rogers Det |
| 27 | 313th | SS Russ Adams Tor |
| 28 | 336th | OF Joe Borchard Fla |
| 29 | 337th | 2B Junior Spivey StL |