| 1 | 7** | June-Reg | Matt Harrington | P | 18 | 6-4 | 210 | R | R | Ind | | Palmdale (Palmdale,CA) | |
| 2 | 47 | June-Reg | Jason Young | P | 20 | 6-5 | 205 | R | R | MLB | 2003-2004 | Stanford University | $275,000 |
| 3 | 77 | June-Reg | Chris Buglovsky | P | 20 | 6-2 | 171 | L | R | AAA | | The College of New Jersey | $415,000 |
| 4 | 107 | June-Reg | Cory Vance | P | 21 | 6-1 | 195 | L | L | MLB | 2002-2003 | Georgia Tech | $320,000 |
| 5 | 137 | June-Reg | Garrett Atkins | IF | 20 | 6-3 | 210 | R | R | MLB | 2003-2009 | University of California-Irvine | $190,000 |
| 6 | 167 | June-Reg | Scott Dohmann | P | 22 | 6-1 | 181 | R | R | MLB | 2004-2008 | University of Louisiana at Lafayette | $140,000 |
| 7 | 197 | June-Reg | Edmund Muth | OF | 22 | 6-0 | 198 | L | L | A+ | | Stanford University | $32,000 |
| 8 | 227 | June-Reg | Dan Conway | C | 20 | 6-2 | 191 | R | R | AAA | | Wake Forest University | $82,500 |
| 9 | 257 | June-Reg | Nick Webb | P | 20 | 6-3 | 205 | L | L | A+ | | University of Louisiana at Lafayette | $70,000 |
| 10 | 287 | June-Reg | Clint Barmes | IF | 21 | 6-1 | 190 | R | R | MLB | 2003-2009 | Indiana State University | $45,000 |
| 11 | 317 | June-Reg | Brad Hawpe | IF | 21 | 6-3 | 210 | L | L | MLB | 2004-2009 | Louisiana State University | |
| 12 | 347 | June-Reg | Sean Green | P | 21 | 6-6 | 230 | R | R | MLB | 2006-2009 | University of Louisville | |
| 13 | 377 | June-Reg | William Vazquez | P | 20 | 6-0 | 140 | R | R | AAA | | Indian Hills Community College-Centerville | |
| 14 | 407 | June-Reg | Bob Zimmermann | P | 18 | 6-1 | 190 | R | R | AA | | De Smet Jesuit (Creve Coeur,MO) | |
| 15 | 437 | June-Reg | Justin Huisman | P | 21 | 6-1 | 196 | R | R | MLB | 2004-2004 | University of Mississippi | |
| 16 | 467 | June-Reg | Jose Vasquez | OF | 17 | 6-3 | 220 | L | L | A | | Booker (Sarasota,FL) | |
| 17 | 497 | June-Reg | Charles Merricks | P | 21 | 6-0 | 200 | L | L | A | | UCLA | |
| 18 | 527 | June-Reg | Scott Berney | P | 22 | 6-3 | 200 | R | R | A | | Clemson University | |
| 19 | 557 | June-Reg | Joe Abell | P | 22 | 6-2 | 187 | R | R | A | | University of New Mexico | |
| 20 | 587 | June-Reg | Ross Pilkington | SS | 18 | 6-0 | 185 | R | R | Rookie | | Loveland (Loveland,CO) | |
| 21 | 617 | June-Reg | Zach Parker | P | 18 | 6-2 | 205 | R | L | AAA | | San Jacinto College | |
| 22 | 647 | June-Reg | Bryan Peck | C | 22 | 5-11 | 195 | R | R | A+ | - | Middle Tennessee State University | |
| 23 | 677 | June-Reg | Josh Pride | C | 22 | 6-0 | 200 | R | R | A+ | | Middle Tennessee State University | |
| 24 | 707 | June-Reg | Eric Storey | 3B | 22 | 6-0 | 175 | R | R | AA | | Butler University | |
| 25 | 737 | June-Reg | Kevin Blocker | SS | 21 | 6-1 | 185 | R | R | A- | | Wofford College | |
| 26 | 767 | June-Reg | Darin Davis | 2B | 18 | | 0 | | | - | | Cypress College | |
| 27 | 797** | June-Reg | Patrick Curran | P | | | 0 | | | Rookie | | Edmonds Community College | |
| 28 | 827 | June-Reg | Steve Guthrie | | | | | | | College | | Palomar College | |
| 29 | 857** | June-Reg | Marcus Townsend | OF | 18 | 6-4 | 210 | R | R | Rookie | | Waller (Waller,TX) | |
| 30 | 887 | June-Reg | Michael Vick | OF | 20 | 6-0 | 215 | | | - | | Virginia Tech | |
| 31 | 917** | June-Reg | Adam Heether | 3B | 18 | 6-0 | 200 | R | R | AAA | | Ripon Christian (Ripon,CA) | |
| 32 | 947** | June-Reg | Chris Netwall | C | 20 | 6-1 | 200 | R | R | AA | | Penn State University | |
| 33 | 977** | June-Reg | Nick McCurdy | P | 20 | 6-3 | 185 | R | R | AAA | | Jefferson Davis Community College | |
| 34 | 1007 | June-Reg | Grant Mullen | 1B | | | 0 | | | - | | Gordon College | |
| 35 | 1037 | June-Reg | Darren Clarke | P | 19 | 6-8 | 235 | R | R | MLB | 2007-2007 | South Florida Community College | |
| 36 | 1067** | June-Reg | Michael Perdomo | OF | 19 | 6-2 | 190 | R | R | Rookie | | Goleman (Miami,FL) | |
| 37 | 1097** | June-Reg | Jason Frome | OF | 20 | 6-0 | 190 | R | R | A+ | | Indiana State University | |
| 38 | 1127 | June-Reg | Jentry Beckstead | P | 20 | 5-11 | 165 | R | R | AAA | | Salt Lake Community College | |
| 39 | 1157 | June-Reg | Mike Davies | P | 19 | 6-3 | 190 | L | L | A+ | | Mount Hood Community College | |
| 40 | 1187** | June-Reg | Josh Bryant | P | 18 | 6-1 | 175 | R | R | - | | South Cobb (Austell,GA) | |
| 41 | 1216 | June-Reg | Sean Johnson | P-SS | | | 0 | | | - | | Clinton (Clinton,IA) | |
| 42 | 1245 | June-Reg | Chad Liter | | | | | | | College | | Wabash Valley College | |
| 43 | 1274 | June-Reg | Seth Mccauley | C | 19 | 6-3 | 210 | R | R | AAA | | Three Forks (Three Forks,MT) | |
| 44 | 1302** | June-Reg | Matt Farnum | P | 19 | 6-2 | 195 | R | R | AA | | Dakota Ridge (Littleton,CO) | |
| 45 | 1328 | June-Reg | Chad Reeves | | | | | | | College | | Pomona (Arvada,CO) | |
| 46 | 1353 | June-Reg | Matthew Barker | 2B | | | 0 | | | - | | Niwot (Longmont,CO) | |
| 47 | 1377 | June-Reg | Don Rogers | | | | | | | College | | De Smet Jesuit (Creve Coeur,MO) | |
| 48 | 1398 | June-Reg | David Rose | CF | | | 0 | | | - | | El Cerrito (El Cerrito,CA) | |
| 49 | 1418 | June-Reg | Jason Kramer | | | | | | | College | | Vernon College | |
| 50 | 1438 | June-Reg | Daniel Bria | P | | | 0 | | | - | | Lassen Community College | |
