| Round | Overall | Player |
|---|---|---|
| 1 | 9th | 1B Todd Helton Col |
| 2 | 16th | SP Pedro Martinez Bos |
| 3 | 33rd | OF Bobby Abreu Phi |
| 4 | 40th | RP John Smoltz Atl |
| 5 | 57th | SP Roy Halladay Tor |
| 6 | 64th | RP Billy Wagner Hou |
| 7 | 81st | OF Garret Anderson Ana |
| 8 | 88th | 2B Aaron Boone NYA |
| 9 | 105th | RP Jose Mesa Phi |
| 10 | 112th | DH Erubiel Durazo Oak |
| 11 | 129th | SP Brad Radke Min |
| 12 | 136th | OF Austin Kearns Cin |
| 13 | 153rd | 3B Jose Hernandez Pit |
| 14 | 160th | SS Jose Valentin ChA |
| 15 | 177th | SP Brad Penny Fla |
| 16 | 184th | SP Ben Sheets Mil |
| 17 | 201st | OF Darin Erstad Ana |
| 18 | 208th | C Jason Varitek Bos |
| 19 | 225th | SP Ted Lilly Oak |
| 20 | 232nd | 3B David Bell Phi |
| 21 | 249th | C A.J. Pierzynski Min |
| 22 | 256th | 1B Tino Martinez StL |
| 23 | 273rd | SP Mark Redman Fla |
| 24 | 280th | 2B Luis Rivas Min |
| 25 | 297th | SP Jose Contreras NYA |
| 26 | 304th | OF Eli Marrero StL |
| 27 | 321st | RP Anthony Alford ChN |
| 28 | 328th | DH Ken Harvey KC |
| 29 | 345th | SS Omar Infante Det |