| 1 | 30 | June-Reg | Chance Caple | P | 20 | 6-6 | 215 | R | R | A+ | | Texas A&M University | $1,200,000 |
| 1 | 36 | June-Reg | Nick Stocks | P | 20 | 6-2 | 190 | R | R | AAA | | Florida State University | $1,410,000 |
| 1 | 46 | June-Reg | Chris Duncan | IF | 18 | 6-5 | 210 | L | R | MLB | 2005-2009 | Canyon del Oro (Tucson,AZ) | $900,000 |
| 2 | 82 | June-Reg | Josh Pearce | P | 21 | 6-3 | 215 | R | R | MLB | 2002-2004 | University of Arizona | |
| 3 | 102 | June-Reg | B.R. Cook | P | 21 | 6-4 | 200 | R | R | AAA | | Oregon State University | |
| 4 | 127 | June-Reg | Ben Johnson | OF | 17 | 6-1 | 200 | R | R | MLB | 2005-2007 | Germantown (Germantown,TN) | |
| 4 | 132 | June-Reg | Jimmy Journell | P | 21 | 6-4 | 205 | R | R | MLB | 2003-2005 | University of Illinois | |
| 5 | 162 | June-Reg | Melvin Williams | CF | | | 0 | | | - | | Rice University | |
| 6 | 192 | June-Reg | Josh Teekel | P | 18 | 6-5 | 210 | R | R | A+ | | Belaire (Baton Rouge,LA) | |
| 7 | 222 | June-Reg | Coco Crisp | OF | 19 | 6-0 | 185 | B | R | MLB | 2002-2009 | Los Angeles Pierce College | |
| 8 | 252 | June-Reg | Shawn Schumacher | C-3B | 22 | 6-1 | 200 | L | R | AA | | Texas A&M University | |
| 9 | 282 | June-Reg | Paul Thames | SS | | | | | | - | | Rice University | |
| 10 | 312 | June-Reg | Kevin Sprague | P | 22 | 6-4 | 215 | L | L | AA | | McNeese State University | |
| 11 | 342** | June-Reg | Aaron Davidson | 2B-OF | 20 | 5-9 | 160 | R | R | Ind | | Cuesta College | |
| 12 | 372 | June-Reg | Brent Spooner | C | | | 0 | R | R | Rookie | | University of Central Florida | |
| 13 | 402 | June-Reg | Albert Pujols | 3B | 19 | 6-3 | 230 | R | R | MLB | 2001-2009 | Maple Woods Community College | $60,000 |
| 14 | 432 | June-Reg | Matt Vincent | P | 22 | 6-1 | 190 | L | L | A | | Lindsey Wilson College | |
| 15 | 462 | June-Reg | Travis Bailey | 3B | 22 | 6-2 | 190 | R | R | AA | | Florida Atlantic University | |
| 16 | 492 | June-Reg | Cheyenne Janke | P | 22 | 6-5 | 235 | R | R | AA | | Nicholls State University | |
| 17 | 522 | June-Reg | Michael Perkins | P | | | | | | AA | | State College of Florida, Manatee-Sarasota | |
| 18 | 552 | June-Reg | Paul Fahs | P | 21 | 6-3 | 195 | R | R | A | | Briarcliffe College | |
| 19 | 582 | June-Reg | Chris Beck | CF | 22 | 6-2 | 210 | R | R | - | | Cal State Fullerton | |
| 20 | 612 | June-Reg | Scotty Layfield | P | 22 | 6-2 | 205 | R | R | AAA | | Valdosta State University | |
| 21 | 642 | June-Reg | Jeremy Cummings | P | 22 | 6-2 | 215 | R | R | AAA | | West Virginia University | |
| 22 | 672 | June-Reg | Christopher Floyd | OF | 21 | 6-1 | 210 | R | R | A | | University of Florida | |
| 23 | 702 | June-Reg | Christopher Fiora | P | 20 | 6-0 | 210 | R | R | A+ | | Towson University | |
| 24 | 732 | June-Reg | Mike Crudale | P | 22 | 6-0 | 205 | R | R | MLB | 2002-2003 | Santa Clara University | |
| 25 | 762 | June-Reg | Mark Penberthy | C | | | 0 | | | - | | Master's College, The | |
| 26 | 792 | June-Reg | Justin Berg | | | | | | | College | | Rice University | |
| 27 | 822 | June-Reg | Don Graves | P | 18 | 6-4 | 205 | R | R | A+ | | Booneville (Booneville,MO) | |
| 28 | 852 | June-Reg | Brandon Peck | P | 22 | 5-10 | 170 | L | L | A | | Kansas State University | |
| 29 | 882 | June-Reg | Justin Albertson | OF | 19 | 6-3 | 210 | R | R | Rookie | | El Camino College | |
| 30 | 912 | June-Reg | Mark Butler | P | | | 0 | | | A- | | Bellevue University | |
| 31 | 942 | June-Reg | Matt Parker | | 20 | 6-3 | 210 | R | R | AAA | | Mercer University | |
| 32 | 972 | June-Reg | Trevor Sansom | P | 23 | 6-4 | 190 | R | R | AA | | West Virginia State University | |
| 33 | 1002 | June-Reg | Bo Hart | 2B | 22 | 5-11 | 175 | R | R | MLB | 2003-2004 | Gonzaga University | |
| 34 | 1032 | June-Reg | Jaqua Moon | P | | | 0 | | | - | | Cypress College | |
| 35 | 1062 | June-Reg | Aaron Dinkel | P | | | 0 | R | R | A- | | College of Eastern Utah | |
| 36 | 1092** | June-Reg | Jeff Cruz | P | 20 | 6-0 | 190 | L | L | A | | Cal State Fullerton | |
| 37 | 1122 | June-Reg | Robert Yates | P | | | 0 | | | - | | University of Arkansas | |
| 38 | 1152 | June-Reg | Christopher Buckley | CF | 22 | 5-11 | 180 | R | R | Ind | | North Arkansas College | |
| 39 | 1182 | June-Reg | Monte Lee | RF | 22 | 6-0 | 195 | R | L | A | | College of Charleston | |
| 40 | 1212** | June-Reg | Ronnie Corona | P | 20 | 6-0 | 188 | R | R | AA | | Cypress College | |