| 2 | 56 | June-Reg | Kevin Brown | C | 21 | 6-2 | 215 | R | R | MLB | 1996-2002 | University of Southern Indiana | $210,000 |
| 3 | 85 | June-Reg | Scott Podsednik | OF | 18 | 6-0 | 170 | L | L | MLB | 2001-2009 | West (West,TX) | |
| 4 | 113 | June-Reg | Dan Hower | P | 21 | 6-1 | 190 | L | L | A+ | | Creighton University | |
| 5 | 141 | June-Reg | J.J. Johnson | OF | 18 | 6-2 | 190 | R | R | A | | Hogan (Vallejo,CA) | |
| 6 | 169 | June-Reg | Jim Brower | P | 21 | 6-2 | 205 | R | R | MLB | 1999-2007 | University of Minnesota | |
| 7 | 197 | June-Reg | Bucky Buckles | P | 21 | 6-1 | 190 | R | R | AAA | | University of Oklahoma | |
| 8 | 225 | June-Reg | Mark Little | OF | 21 | 6-0 | 195 | R | R | MLB | 1998-2004 | University of Memphis | |
| 9 | 253 | June-Reg | John Powell | P | 23 | 5-10 | 180 | R | R | AAA | | Auburn University | |
| 10 | 281 | June-Reg | Stephen Larkin | 1B-OF | 20 | 6-0 | 190 | L | L | MLB | 1998-1998 | University of Texas | |
| 11 | 309** | June-Reg | Terry Harvey | P | 21 | 6-1 | 180 | R | R | A+ | | North Carolina State University | |
| 12 | 337 | June-Reg | Matt Bokemeier | SS | | | | | | AA | | University of California-Santa Barbara | |
| 13 | 365 | June-Reg | Kevin Millican | C | | | | | | A | | Southeastern Louisiana University | |
| 14 | 393 | June-Reg | Carlos Simmons | p | 20 | 6-1 | 200 | R | R | A | | Prince George's Community College | |
| 15 | 421 | June-Reg | Chris Gogolewski | p | | | | L | L | A | | St. Mary's University | |
| 16 | 449 | June-Reg | Craig McLendon | C | 18 | 6-3 | 185 | R | R | A- | | Jonesboro (Jonesboro,GA) | |
| 17 | 477 | June-Reg | Reid Ryan | p | | | | | | A+ | | Texas Christian University | |
| 18 | 505** | June-Reg | Trey Salinas | OF | 19 | 6-1 | 190 | R | R | AAA | | Moody (Corpus Christi,TX) | |
| 19 | 533 | June-Reg | Erik Sauve | 2B | | | | | | A+ | | Virginia Commonwealth University | |
| 20 | 561 | June-Reg | Scott Stewart | p | 18 | 6-2 | 225 | R | L | MLB | 2001-2004 | East Gaston (Mount Holly,NC) | |
| 21 | 589 | June-Reg | Asbel Ortiz | SS | 18 | 6-0 | 180 | B | R | A | | | |
| 22 | 617 | June-Reg | Gerald Johnson | OF | | | | | | - | | Menlo-Atherton (Atherton,CA) | |
| 23 | 645 | June-Reg | Ryan Rutz | 2B | 21 | 5-5 | 155 | R | R | A | | University of Washington | |
| 24 | 673 | June-Reg | Jason Miller | C | | | | L | R | Rookie | | College of Saint Rose | |
| 25 | 701 | June-Reg | Rodney Cook | p | 23 | 6-3 | 170 | R | R | A+ | | Stephen F. Austin University | |
| 26 | 729 | June-Reg | Eddie Comeaux | OF | 20 | 6-3 | 185 | R | R | A | | University of California | |
| 27 | 757 | June-Reg | Daniel Vasquez | OF | | | | | | A+ | | Rockland Community College | |
| 28 | 785 | June-Reg | Jaime Escamilla | p | 22 | 5-9 | 165 | R | L | AA | | Point Loma Nazarene University | |
| 29 | 813 | June-Reg | Mike Mortimer | p | | | | | | A | | Northwest Nazarene University | |
| 30 | 841 | June-Reg | Gary MacKinlay | p | | | | | | Ind | | C.D. Hylton (Woodbridge,VA) | |
| 31 | 869 | June-Reg | Joe Kail | 3B | 21 | 5-9 | 165 | R | R | A | | Johns Hopkins University | |
| 32 | 897 | June-Reg | Matthew Pauls | p-OF | | | | | | A | | Odessa College | |
| 33 | 925 | June-Reg | Joe Keusch | p | 22 | 6-1 | 175 | L | R | AA | | Eastern Illinois University | |
| 34 | 953 | June-Reg | Janos Briscoe | p | | | | | | A+ | | Western Kentucky University | |
| 35 | 981 | June-Reg | Matthew Buhs | p | | | | | | Rookie | | Southern Illinois University | |
| 36 | 1009 | June-Reg | Michael-Sean Ryan | p | 18 | 6-8 | 210 | R | R | Rookie | | Broadneck (Annapolis,MD) | |
| 37 | 1037 | June-Reg | Jesse Brown | p | | | | | | - | | Kalaheo (Kailua,HI) | |
| 38 | 1065 | June-Reg | Buck Hall | p | | | | | | - | | Georgia Tech | |
| 39 | 1093** | June-Reg | Jim Matan | 1B | 18 | 6-3 | 230 | R | R | A | | Gonzaga College Prep (Washington,DC) | |