| Round | Overall | Player |
|---|---|---|
| 1 | 9th | OF Vladimir Guerrero Mon |
| 2 | 16th | SP Randy Johnson Ari |
| 3 | 33rd | SS Derek Jeter NYA |
| 4 | 40th | 3B Scott Rolen Phi |
| 5 | 57th | OF J.D. Drew StL |
| 6 | 64th | SP Roger Clemens NYA |
| 7 | 81st | 1B Rafael Palmeiro Tex |
| 8 | 88th | SP Al Leiter NYN |
| 9 | 105th | OF Richard Hidalgo Hou |
| 10 | 112th | 2B Jose Ortiz Col |
| 11 | 129th | C Javy Lopez Atl |
| 12 | 136th | RP Matt Anderson Det |
| 13 | 153rd | SP Jamie Moyer Sea |
| 14 | 160th | 3B Mike Lowell Fla |
| 15 | 177th | 1B Fred McGriff ChN |
| 16 | 184th | SP Rick Reed Min |
| 17 | 201st | OF Brian Jordan LA |
| 18 | 208th | OF Jeff Conine Bal |
| 19 | 225th | 1B Derrek Lee Fla |
| 20 | 232nd | RP Jeff Zimmerman Tex |
| 21 | 249th | SP Orlando Hernandez NYA |
| 22 | 256th | OF Russ Branyan Cle |
| 23 | 273rd | SP Danys Baez Cle |
| 24 | 280th | SP Jason Bere ChN |
| 25 | 297th | SS Mike Bordick Bal |
| 26 | 304th | SP Rick Helling Ari |
| 27 | 321st | RP Mike DeJean Mil |
| 28 | 328th | SP Victor Zambrano TB |
| 29 | 345th | C Jason LaRue Cin |