| Round | Overall | Player |
|---|---|---|
| 1 | 12th | 3B Albert Pujols StL |
| 2 | 13th | SS Derek Jeter NYA |
| 3 | 36th | OF Magglio Ordonez ChA |
| 4 | 37th | OF J.D. Drew StL |
| 5 | 60th | RP Troy Percival Ana |
| 6 | 61st | RP Jason Isringhausen StL |
| 7 | 84th | 1B Paul Konerko ChA |
| 8 | 85th | C Mike Lieberthal Phi |
| 9 | 108th | SP Al Leiter NYN |
| 10 | 109th | SP Bartolo Colon Cle |
| 11 | 132nd | OF Mike Cameron Sea |
| 12 | 133rd | OF Geoff Jenkins Mil |
| 13 | 156th | SP Robert Person Phi |
| 14 | 157th | SP Rick Reed Min |
| 15 | 180th | SP Ramon Ortiz Ana |
| 16 | 181st | 2B Luis Rivas Min |
| 17 | 204th | SP Andy Ashby LA |
| 18 | 205th | SP Dustin Hermanson Bos |
| 19 | 228th | C Ben Petrick Col |
| 20 | 229th | 3B Eric Hinske Tor |
| 21 | 252nd | SS Alex Gonzalez ChN |
| 22 | 253rd | 2B D'Angelo Jimenez SD |
| 23 | 276th | 1B J.T. Snow SF |
| 24 | 277th | OF Mark Kotsay SD |
| 25 | 300th | SP James Baldwin Sea |
| 26 | 301st | SP Ruben Quevedo Mil |
| 27 | 324th | OF Rondell White NYA |
| 28 | 325th | SP Brian Tollberg SD |
| 29 | 348th | OF Ruben Sierra Sea |