| Round | Overall | Player |
|---|---|---|
| 1 | 1st | SS Alex Rodriguez Tex |
| 2 | 24th | OF Bobby Abreu Phi |
| 3 | 25th | 2B Roberto Alomar NYN |
| 4 | 48th | SP Roger Clemens NYA |
| 5 | 49th | 3B Corey Koskie Min |
| 6 | 72nd | RP Armando Benitez NYN |
| 7 | 73rd | OF Cliff Floyd Fla |
| 8 | 96th | SP Andy Pettitte NYA |
| 9 | 97th | SP Jeff Weaver Det |
| 10 | 120th | SP Eric Milton Min |
| 11 | 121st | OF Johnny Damon Bos |
| 12 | 144th | 1B Fred McGriff ChN |
| 13 | 145th | OF Roger Cedeno NYN |
| 14 | 168th | SP Jason Johnson Bal |
| 15 | 169th | SP Randy Wolf Phi |
| 16 | 192nd | C Javy Lopez Atl |
| 17 | 193rd | 1B John Olerud Sea |
| 18 | 216th | OF Russ Branyan Cle |
| 19 | 217th | SP Kris Benson Pit |
| 20 | 240th | SP Paul Abbott Sea |
| 21 | 241st | SP Octavio Dotel Hou |
| 22 | 264th | OF Brian Jordan LA |
| 23 | 265th | 3B Joe Randa KC |
| 24 | 288th | 2B Mark Grudzielanek LA |
| 25 | 289th | C Benito Santiago SF |
| 26 | 312th | SS Julio Lugo Hou |
| 27 | 313th | SP Orlando Hernandez NYA |
| 28 | 336th | SP Ismael Valdez Tex |
| 29 | 337th | OF Chris Singleton Bal |