| Round | Overall | Player |
|---|---|---|
| 1 | 5th | OF Sammy Sosa ChN |
| 2 | 20th | OF Juan Gonzalez Det |
| 3 | 29th | 1B Rafael Palmeiro Tex |
| 4 | 44th | 3B Robin Ventura NYN |
| 5 | 53rd | C Mike Lieberthal Phi |
| 6 | 68th | RP Scott Williamson Cin |
| 7 | 77th | 3B Tony Batista Tor |
| 8 | 92nd | SP Tim Hudson Oak |
| 9 | 101st | SP Roger Clemens NYA |
| 10 | 116th | SP Rick Ankiel StL |
| 11 | 125th | SP Kris Benson Pit |
| 12 | 140th | RP Rick Aguilera ChN |
| 13 | 149th | OF Henry Rodriguez ChN |
| 14 | 164th | SP Russ Ortiz SF |
| 15 | 173rd | SP Ismael Valdez ChN |
| 16 | 188th | OF Brady Anderson Bal |
| 17 | 197th | 2B Bret Boone SD |
| 18 | 212th | RP Paul Shuey Cle |
| 19 | 221st | 2B Todd Walker Min |
| 20 | 236th | C Chris Widger Mon |
| 21 | 245th | SS Deivi Cruz Det |
| 22 | 260th | SS Damian Jackson SD |
| 23 | 269th | 2B Homer Bush Tor |
| 24 | 284th | SP Justin Thompson Tex |
| 25 | 293rd | RP John Franco NYN |
| 26 | 308th | OF Marquis Grissom Mil |
| 27 | 317th | 1B Derrek Lee Fla |