| Round | Overall | Player |
|---|---|---|
| 1 | 2nd | 1B Albert Pujols StL |
| 2 | 23rd | 1B Mark Teixeira Tex |
| 3 | 26th | SP Tim Hudson Atl |
| 4 | 47th | RP Jason Isringhausen StL |
| 5 | 50th | 1B Lance Berkman Hou |
| 6 | 71st | RP Eddie Guardado Sea |
| 7 | 74th | 3B Melvin Mora Bal |
| 8 | 95th | SP Roy Halladay Tor |
| 9 | 98th | OF Moises Alou SF |
| 10 | 119th | OF Luis Gonzalez Ari |
| 11 | 122nd | SP Andy Pettitte Hou |
| 12 | 143rd | 3B Chone Figgins LAA |
| 13 | 146th | SS Cesar Izturis LAD |
| 14 | 167th | C Ramon Hernandez SD |
| 15 | 170th | OF Raul Ibanez Sea |
| 16 | 191st | DH Mike Sweeney KC |
| 17 | 194th | SP Mike Hampton Atl |
| 18 | 215th | OF Craig Biggio Hou |
| 19 | 218th | 2B Ron Belliard Cle |
| 20 | 239th | OF Darin Erstad LAA |
| 21 | 242nd | SP Eric Milton Cin |
| 22 | 263rd | 3B Joe Randa SD |
| 23 | 266th | SP Daniel Cabrera Bal |
| 24 | 287th | SP Chin-Hui Tsao Col |
| 25 | 290th | SP Kenny Rogers Tex |
| 26 | 311th | C Rod Barajas Tex |
| 27 | 314th | SS J.J. Hardy Mil |
| 28 | 335th | SP Kirk Rueter SF |
| 29 | 338th | RP Ugueth Urbina Phi |