| Round | Overall | Player |
|---|---|---|
| 1 | 10th | SS Nomar Garciaparra Bos |
| 2 | 15th | 2B Craig Biggio Hou |
| 3 | 34th | P Roger Clemens Tor |
| 4 | 39th | P Mike Mussina Bal |
| 5 | 58th | 2B John Valentin Bos |
| 6 | 63rd | P Darryl Kile Col |
| 7 | 82nd | P Shawn Estes SF |
| 8 | 87th | P Roberto Hernandez TB |
| 9 | 106th | OF Bernard Gilkey NYN |
| 10 | 111th | P John Franco NYN |
| 11 | 130th | C Mike Lieberthal Phi |
| 12 | 135th | 1B Kevin Young Pit |
| 13 | 154th | OF Garret Anderson Ana |
| 14 | 159th | OF Al Martin Pit |
| 15 | 178th | P Brett Tomko Cin |
| 16 | 183rd | 1B J.T. Snow SF |
| 17 | 202nd | OF Brian S. Giles Cle |
| 18 | 207th | P Juan Guzman Tor |
| 19 | 226th | P Tom Gordon Bos |
| 20 | 231st | C John Flaherty TB |
| 21 | 250th | P Tim Wakefield Bos |
| 22 | 255th | P Roger Bailey Col |
| 23 | 274th | P Brian Anderson Ari |
| 24 | 279th | OF Johnny Damon KC |
| 25 | 298th | SS Mike Bordick Bal |
| 26 | 303rd | 2B Tony Fernandez Tor |
| 27 | 322nd | P Bartolo Colon Cle |