| Round | Overall | Player |
|---|---|---|
| 1 | 12th | OF Luis Gonzalez Ari |
| 2 | 13th | 1B Jeff Bagwell Hou |
| 3 | 36th | 3B Scott Rolen Phi |
| 4 | 37th | SP Mark Mulder Oak |
| 5 | 60th | 2B Bret Boone Sea |
| 6 | 61st | C Jason Kendall Pit |
| 7 | 84th | OF Mike Cameron Sea |
| 8 | 85th | SS Rafael Furcal Atl |
| 9 | 108th | SP Al Leiter NYN |
| 10 | 109th | SP Andy Pettitte NYA |
| 11 | 132nd | RP Anthony Alford ChN |
| 12 | 133rd | RP Roberto Hernandez KC |
| 13 | 156th | SP David Wells NYA |
| 14 | 157th | SP Rick Reed Min |
| 15 | 180th | OF Marty Cordova Bal |
| 16 | 181st | RP Willis Roberts Bal |
| 17 | 204th | OF Reggie Sanders SF |
| 18 | 205th | OF Matt Lawton Cle |
| 19 | 228th | SP Steve Trachsel NYN |
| 20 | 229th | 3B Robin Ventura NYA |
| 21 | 252nd | SP Rick Helling Ari |
| 22 | 253rd | SS Mike Bordick Bal |
| 23 | 276th | 1B David Segui Bal |
| 24 | 277th | C Einar Diaz Cle |
| 25 | 300th | 2B Damion Easley Det |
| 26 | 301st | SP Brian Tollberg SD |
| 27 | 324th | C Michael Barrett Mon |
| 28 | 325th | SP Chuck Finley Cle |
| 29 | 348th | 1B Steve Cox TB |