| Round | Overall | Player |
|---|---|---|
| 1 | 2nd | OF Barry Bonds SF |
| 2 | 23rd | 3B Eric Chavez Oak |
| 3 | 26th | OF Brian S. Giles Pit |
| 4 | 47th | 1B Mike Sweeney KC |
| 5 | 50th | RP Troy Percival Ana |
| 6 | 71st | SP Kevin Millwood Phi |
| 7 | 74th | RP Robb Nen SF |
| 8 | 95th | 1B Ryan Klesko SD |
| 9 | 98th | SP Randy Wolf Phi |
| 10 | 119th | SP Andy Pettitte NYA |
| 11 | 122nd | OF Austin Kearns Cin |
| 12 | 143rd | 2B Luis Castillo Fla |
| 13 | 146th | C Toby Hall TB |
| 14 | 167th | SP David Wells NYA |
| 15 | 170th | RP Jorge Julio Bal |
| 16 | 191st | SP C.C. Sabathia Cle |
| 17 | 194th | 1B Sean Casey Cin |
| 18 | 215th | SS Omar Vizquel Cle |
| 19 | 218th | SP Rick Reed Min |
| 20 | 239th | OF Mark Kotsay SD |
| 21 | 242nd | SP Kazuhisa Ishii LA |
| 22 | 263rd | 3B David Bell Phi |
| 23 | 266th | OF Corey Patterson ChN |
| 24 | 287th | SP John Patterson Ari |
| 25 | 290th | SP Joe Kennedy TB |
| 26 | 311th | OF Geoff Jenkins Mil |
| 27 | 314th | 2B Mike Young Tex |
| 28 | 335th | SS Jack Wilson Pit |
| 29 | 338th | C Miguel Olivo ChA |