| Round | Overall | Player |
|---|---|---|
| 1 | 2nd | 1B Albert Pujols StL |
| 2 | 23rd | OF Alfonso Soriano ChA |
| 3 | 26th | SS Jose Reyes NYN |
| 4 | 47th | OF Carlos Lee Hou |
| 5 | 50th | 3B Eric Chavez Oak |
| 6 | 71st | SP Bartolo Colon LAA |
| 7 | 74th | DH Jim Thome ChA |
| 8 | 95th | C Jason Varitek Bos |
| 9 | 98th | RP Jason Isringhausen StL |
| 10 | 119th | OF Cliff Floyd ChA |
| 11 | 122nd | SP C.C. Sabathia Cle |
| 12 | 143rd | SP Kevin Millwood Tex |
| 13 | 146th | SP Mike Mussina NYA |
| 14 | 167th | SP Jon Lieber Phi |
| 15 | 170th | DH Jose Vidro Was |
| 16 | 191st | 2B Mark Ellis Oak |
| 17 | 194th | SP Ervin Santana LAA |
| 18 | 215th | RP Chris Reitsma Atl |
| 19 | 218th | OF Mark Kotsay Oak |
| 20 | 239th | SP Jae Weong Seo TB |
| 21 | 242nd | C Paul Lo Duca NYN |
| 22 | 263rd | SP Jamie Moyer Phi |
| 23 | 266th | SP Justin Verlander Det |
| 24 | 287th | SS David Eckstein StL |
| 25 | 290th | 3B Ryan Zimmerman Was |
| 26 | 311th | 1B Kevin Millar Bal |
| 27 | 314th | SP Ian Snell Pit |
| 28 | 335th | OF Willy Taveras Hou |