| Round | Overall | Player |
|---|---|---|
| 1 | 9th | SS Nomar Garciaparra Bos |
| 2 | 16th | 1B Jason Giambi Oak |
| 3 | 33rd | SP Tom Glavine Atl |
| 4 | 40th | RP Kazuhiro Sasaki Sea |
| 5 | 57th | OF Jim Edmonds StL |
| 6 | 64th | 3B Tony Batista Tor |
| 7 | 81st | SP Ryan Dempster Fla |
| 8 | 88th | 2B Craig Biggio Hou |
| 9 | 105th | SP Andy Ashby LA |
| 10 | 112th | OF Shannon Stewart Tor |
| 11 | 129th | OF Jeromy Burnitz Mil |
| 12 | 136th | SP Dustin Hermanson StL |
| 13 | 153rd | C Brent Mayne Col |
| 14 | 160th | SP Shane Reynolds Hou |
| 15 | 177th | 1B J.T. Snow SF |
| 16 | 184th | C Ben Molina Ana |
| 17 | 201st | OF Jose Cruz Jr Tor |
| 18 | 208th | RP Tom Gordon ChN |
| 19 | 225th | OF Jeffrey Hammonds Mil |
| 20 | 232nd | SP Matt Clement Fla |
| 21 | 249th | 2B Pokey Reese Cin |
| 22 | 256th | SP Garrett Stephenson StL |
| 23 | 273rd | SP Tony Armas Jr. Mon |
| 24 | 280th | 3B Vinny Castilla Hou |
| 25 | 297th | SS Alex Gonzalez Tor |
| 26 | 304th | SP Eric Gagne LA |
| 27 | 321st | SP Jason Schmidt Pit |
| 28 | 328th | OF Brady Anderson Bal |
| 29 | 345th | RP John Franco NYN |