| Round | Overall | Player |
|---|---|---|
| 1 | 12th | OF Vladimir Guerrero Mon |
| 2 | 13th | 1B Carlos Delgado Tor |
| 3 | 36th | OF Juan Gonzalez Tex |
| 4 | 37th | 2B Bret Boone Sea |
| 5 | 60th | RP Kazuhiro Sasaki Sea |
| 6 | 61st | C Paul Lo Duca LA |
| 7 | 84th | SS Jimmy Rollins Phi |
| 8 | 85th | 1B Mo Vaughn NYN |
| 9 | 108th | RP Jose Mesa Phi |
| 10 | 109th | RP Byung-Hyun Kim Ari |
| 11 | 132nd | 3B Jeff Cirillo Sea |
| 12 | 133rd | OF Raul Mondesi Tor |
| 13 | 156th | SP Ryan Dempster Fla |
| 14 | 157th | OF Trot Nixon Bos |
| 15 | 180th | SP Shawn Estes NYN |
| 16 | 181st | SP Rick Reed Min |
| 17 | 204th | SP Shane Reynolds Hou |
| 18 | 205th | 3B Tony Batista Bal |
| 19 | 228th | SP Mike Hampton Col |
| 20 | 229th | 1B Derrek Lee Fla |
| 21 | 252nd | SP Kirk Rueter SF |
| 22 | 253rd | SP John Burkett Bos |
| 23 | 276th | SP Rick Helling Ari |
| 24 | 277th | SP Paul Abbott Sea |
| 25 | 300th | OF Terrence Long Oak |
| 26 | 301st | SS Neifi Perez KC |
| 27 | 324th | 1B Lee Stevens Mon |
| 28 | 325th | C Einar Diaz Cle |
| 29 | 348th | 2B Mike Young Tex |