| Round | Overall | Player |
|---|---|---|
| 1 | 9th | P Greg Maddux Atl |
| 2 | 16th | P Pedro Martinez Bos |
| 3 | 33rd | P Denny Neagle Atl |
| 4 | 40th | P Andy Pettitte NYA |
| 5 | 57th | P Chan Ho Park LA |
| 6 | 64th | OF David Justice Cle |
| 7 | 81st | OF Paul O'Neill NYA |
| 8 | 88th | 1B John Jaha Mil |
| 9 | 105th | 3B Bobby Bonilla Fla |
| 10 | 112th | 2B Ray Durham ChA |
| 11 | 129th | OF Butch Huskey NYN |
| 12 | 136th | DH Chili Davis NYA |
| 13 | 153rd | 3B Edgardo Alfonzo NYN |
| 14 | 160th | OF Magglio Ordonez ChA |
| 15 | 177th | C Jorge Fabregas Ari |
| 16 | 184th | P Jaime Navarro ChA |
| 17 | 201st | P Kerry Wood ChN |
| 18 | 208th | P Willie Blair Ari |
| 19 | 225th | C Scott Hatteberg Bos |
| 20 | 232nd | SS Jeff Blauser ChN |
| 21 | 249th | OF Matt Stairs Oak |
| 22 | 256th | OF Ruben Rivera SD |
| 23 | 273rd | P Jason Bere ChA |
| 24 | 280th | OF Juan Encarnacion Det |
| 25 | 297th | 1B Will Clark Tex |
| 26 | 304th | 2B Mickey Morandini ChN |