| Round | Overall | Player |
|---|---|---|
| 1 | 9th | SS Mike Young Tex |
| 2 | 16th | 1B Todd Helton Col |
| 3 | 33rd | OF Carlos Beltran NYN |
| 4 | 40th | 2B Jorge Cantu TB |
| 5 | 57th | SP Pedro Martinez NYN |
| 6 | 64th | OF Vernon Wells Tor |
| 7 | 81st | 3B Chipper Jones Atl |
| 8 | 88th | OF Brian S. Giles SD |
| 9 | 105th | RP Trevor Hoffman SD |
| 10 | 112th | SP John Patterson Was |
| 11 | 129th | OF Jonny Gomes TB |
| 12 | 136th | SP Cliff Lee Cle |
| 13 | 153rd | OF Preston Wilson StL |
| 14 | 160th | SP Daniel Cabrera Bal |
| 15 | 177th | C Kenji Johjima Sea |
| 16 | 184th | RP Keith Foulke Cle |
| 17 | 201st | OF Josh Willingham Fla |
| 18 | 208th | DH Mike Sweeney KC |
| 19 | 225th | SP Jarrod Washburn Sea |
| 20 | 232nd | SP Aaron Heilman NYN |
| 21 | 249th | 2B Josh Barfield Cle |
| 22 | 256th | SP Dave Bush Mil |
| 23 | 273rd | OF Rocco Baldelli TB |
| 24 | 280th | SS Juan Uribe ChA |
| 25 | 297th | 3B Aaron Boone Cle |
| 26 | 304th | SP Ryan Madson Phi |
| 27 | 321st | SP Jon Papelbon Bos |
| 28 | 328th | 3B Melvin Upton TB |