| Round | Overall | Player |
|---|---|---|
| 1 | 2nd | SP Pedro Martinez Bos |
| 2 | 23rd | OF Barry Bonds SF |
| 3 | 26th | SS Miguel Tejada Oak |
| 4 | 47th | C Jorge Posada NYA |
| 5 | 50th | 2B Ray Durham ChA |
| 6 | 71st | SP Roger Clemens NYA |
| 7 | 74th | RP Keith Foulke ChA |
| 8 | 95th | RP Matt Mantei Ari |
| 9 | 98th | 1B Richie Sexson Mil |
| 10 | 119th | SS Omar Vizquel Cle |
| 11 | 122nd | 1B Ryan Klesko SD |
| 12 | 143rd | 3B Alfonso Soriano NYA |
| 13 | 146th | OF Greg Vaughn TB |
| 14 | 167th | 3B Matt Williams Ari |
| 15 | 170th | OF Ellis Burks Cle |
| 16 | 191st | SP Rick Reed NYN |
| 17 | 194th | SP Scott Williamson Cin |
| 18 | 215th | RP Jose Jimenez Col |
| 19 | 218th | SP Shane Reynolds Hou |
| 20 | 239th | OF Ray Lankford StL |
| 21 | 242nd | OF Jose Valentin ChA |
| 22 | 263rd | SP Cal Eldred ChA |
| 23 | 266th | C Jason LaRue Cin |
| 24 | 287th | SP Octavio Dotel Hou |
| 25 | 290th | OF Dante Bichette Bos |
| 26 | 311th | SP Charles Nagy Cle |
| 27 | 314th | OF Ron Gant Col |
| 28 | 335th | 1B Derrek Lee Fla |
| 29 | 338th | 3B Chris Truby Hou |