| Round | Overall | Player |
|---|---|---|
| 1 | 7th | 1B Jeff Bagwell Hou |
| 2 | 18th | SS Derek Jeter NYA |
| 3 | 31st | 3B Albert Pujols StL |
| 4 | 42nd | OF Gary Sheffield Atl |
| 5 | 55th | RP Keith Foulke ChA |
| 6 | 66th | 1B Jim Thome Cle |
| 7 | 79th | OF Carlos Beltran KC |
| 8 | 90th | RP Bob Wickman Cle |
| 9 | 103rd | SP Brad Penny Fla |
| 10 | 114th | RP Jose Mesa Phi |
| 11 | 127th | OF Trot Nixon Bos |
| 12 | 138th | 2B Marcus Giles Atl |
| 13 | 151st | SP Jamie Moyer Sea |
| 14 | 162nd | C Jason Varitek Bos |
| 15 | 175th | SP John Burkett Bos |
| 16 | 186th | SP Kevin Millwood Atl |
| 17 | 199th | SP Brian Lawrence SD |
| 18 | 210th | DH Ellis Burks Cle |
| 19 | 223rd | OF Jeff Conine Bal |
| 20 | 234th | SP Jason Schmidt SF |
| 21 | 247th | SS Mike Bordick Bal |
| 22 | 258th | SP Jeff Suppan KC |
| 23 | 271st | 2B Damion Easley Det |
| 24 | 282nd | 3B Dean Palmer Det |
| 25 | 295th | SP Ruben Quevedo Mil |
| 26 | 306th | 1B Steve Cox TB |
| 27 | 319th | 3B Bill Mueller ChN |
| 28 | 330th | C Michael Barrett Mon |
| 29 | 343rd | OF Ruben Sierra Sea |