| Round | Overall | Player |
|---|---|---|
| 1 | 1st | 3B Alex Rodriguez NYA |
| 2 | 24th | SP Mark Prior ChN |
| 3 | 25th | SP Curt Schilling Bos |
| 4 | 48th | SP Randy Johnson Ari |
| 5 | 49th | 1B Jeff Bagwell Hou |
| 6 | 72nd | OF Carlos Lee ChA |
| 7 | 73rd | OF Ichiro Suzuki Sea |
| 8 | 96th | RP Jason Isringhausen StL |
| 9 | 97th | SP Johan Santana Min |
| 10 | 120th | SS Jose Reyes NYN |
| 11 | 121st | SS Angel Berroa KC |
| 12 | 144th | OF Adam Dunn Cin |
| 13 | 145th | SP Matt Clement ChN |
| 14 | 168th | RP Joe Nathan Min |
| 15 | 169th | OF Hideki Matsui NYA |
| 16 | 192nd | SP Brett Myers Phi |
| 17 | 193rd | C Paul Lo Duca Fla |
| 18 | 216th | OF Scott Podsednik Mil |
| 19 | 217th | RP Matt Herges SF |
| 20 | 240th | SP Brian Lawrence SD |
| 21 | 241st | 3B D'Angelo Jimenez Cin |
| 22 | 264th | 3B Joe Randa KC |
| 23 | 265th | OF Juan Pierre Fla |
| 24 | 288th | C Robby Hammock Ari |
| 25 | 289th | OF Jason Bay Pit |
| 26 | 312th | 1B Tino Martinez TB |
| 27 | 313th | SS David Eckstein Ana |
| 28 | 336th | SP Matt Riley Bal |
| 29 | 337th | SP Doug Waechter TB |