| Round | Overall | Player |
|---|---|---|
| 1 | 1st | SS Alex Rodriguez Tex |
| 2 | 24th | OF Luis Gonzalez Ari |
| 3 | 25th | OF Larry Walker Col |
| 4 | 48th | 3B Edgardo Alfonzo NYN |
| 5 | 49th | OF Juan Gonzalez Tex |
| 6 | 72nd | SP Tom Glavine Atl |
| 7 | 73rd | OF Bernie Williams NYA |
| 8 | 96th | SP Jon Lieber ChN |
| 9 | 97th | SP C.C. Sabathia Cle |
| 10 | 120th | C Javy Lopez Atl |
| 11 | 121st | 2B Marlon Anderson Phi |
| 12 | 144th | 1B John Olerud Sea |
| 13 | 145th | SP Jason Schmidt SF |
| 14 | 168th | SP Ramon Ortiz Ana |
| 15 | 169th | SP Shane Reynolds Hou |
| 16 | 192nd | SP Pedro Astacio NYN |
| 17 | 193rd | 1B Tino Martinez StL |
| 18 | 216th | SP Mike Hampton Col |
| 19 | 217th | SP David Wells NYA |
| 20 | 240th | SP Livan Hernandez SF |
| 21 | 241st | 3B Fernando Tatis Mon |
| 22 | 264th | C Einar Diaz Cle |
| 23 | 265th | OF Terrence Long Oak |
| 24 | 288th | SS Deivi Cruz SD |
| 25 | 289th | OF Rusty Greer Tex |
| 26 | 312th | 2B Ron Belliard Mil |
| 27 | 313th | SP Bruce Chen NYN |
| 28 | 336th | 3B Dean Palmer Det |
| 29 | 337th | OF Jay Payton NYN |