| Round | Overall | Player |
|---|---|---|
| 1 | 4th | OF Barry Bonds SF |
| 2 | 21st | 3B Albert Pujols StL |
| 3 | 28th | OF Ken Griffey Jr Cin |
| 4 | 45th | RP Billy Wagner Hou |
| 5 | 52nd | 1B Frank Thomas ChA |
| 6 | 69th | 2B Jose Vidro Mon |
| 7 | 76th | SP Kerry Wood ChN |
| 8 | 93rd | SP Wade Miller Hou |
| 9 | 100th | SP Tom Glavine Atl |
| 10 | 117th | C Javy Lopez Atl |
| 11 | 124th | 3B Corey Koskie Min |
| 12 | 141st | RP Byung-Hyun Kim Ari |
| 13 | 148th | OF Carl Everett Tex |
| 14 | 165th | SS Edgar Renteria StL |
| 15 | 172nd | SP Jason Schmidt SF |
| 16 | 189th | OF Tim Salmon Ana |
| 17 | 196th | SP Roy Halladay Tor |
| 18 | 213th | SP Carlos Hernandez Hou |
| 19 | 220th | 1B Derrek Lee Fla |
| 20 | 237th | SP Jason Bere ChN |
| 21 | 244th | SP Terry Adams Phi |
| 22 | 261st | OF Bubba Trammell SD |
| 23 | 268th | 2B Luis Rivas Min |
| 24 | 285th | SP Carl Pavano Mon |
| 25 | 292nd | C Darrin Fletcher Tor |
| 26 | 309th | SS Felipe Lopez Tor |
| 27 | 316th | SP Eric Gagne LA |
| 28 | 333rd | 3B Travis Fryman Cle |
| 29 | 340th | SP Nick Neugebauer Mil |