| Round | Overall | Player |
|---|---|---|
| 1 | 7th | SP Curt Schilling Ari |
| 2 | 18th | OF Magglio Ordonez ChA |
| 3 | 31st | RP John Smoltz Atl |
| 4 | 42nd | OF Larry Walker Col |
| 5 | 55th | 2B Ray Durham SF |
| 6 | 66th | RP Billy Wagner Hou |
| 7 | 79th | SP Tom Glavine NYN |
| 8 | 90th | SS Rafael Furcal Atl |
| 9 | 103rd | 1B Derrek Lee Fla |
| 10 | 114th | C Jason Kendall Pit |
| 11 | 127th | 3B Mark Bellhorn Col |
| 12 | 138th | DH Jeremy Giambi Bos |
| 13 | 151st | OF Darin Erstad Ana |
| 14 | 162nd | SP Rodrigo Lopez Bal |
| 15 | 175th | RP Scott Stewart Mon |
| 16 | 186th | SP Jason Jennings Col |
| 17 | 199th | C Michael Barrett Mon |
| 18 | 210th | SP Kenny Rogers Min |
| 19 | 223rd | SP Kris Benson Pit |
| 20 | 234th | SS Tony Womack ChN |
| 21 | 247th | 3B Vinny Castilla Atl |
| 22 | 258th | 2B Fernando Vina StL |
| 23 | 271st | 1B David Ortiz Bos |
| 24 | 282nd | SP Livan Hernandez Mon |
| 25 | 295th | RP Alan Embree Bos |
| 26 | 306th | OF Terrence Long Oak |
| 27 | 319th | SP John Thomson Tex |
| 28 | 330th | OF Eli Marrero StL |
| 29 | 343rd | DH Brad Fullmer Ana |