| 1 | 13 | June-Reg | Shaun Boyd | IF | 18 | 5-10 | 175 | R | R | AAA | - | Vista (Vista,CA) | $1,750,000 |
| 1 | 24 | June-Reg | Blake Williams | P | 21 | 6-5 | 225 | R | R | A+ | | Texas State University | $1,375,000 |
| 2 | 53 | June-Reg | Chris Narveson | P | 18 | 6-3 | 180 | L | L | MLB | 2006-2009 | Roberson (Asheville,NC) | $675,000 |
| 3 | 83 | June-Reg | Chase Voshell | IF | 21 | 6-2 | 185 | R | R | A+ | | Wake Forest University | $430,000 |
| 4 | 113 | June-Reg | Yadier Molina | C | 17 | 5-11 | 187 | R | R | MLB | 2004-2009 | Maestro Ladi (Vega Alta,PR) | $325,000 |
| 5 | 143 | June-Reg | Josh Axelson | P | 21 | 6-1 | 201 | R | R | AA | | Michigan State University | $165,000 |
| 6 | 173 | June-Reg | Justin Woodrow | LF | 18 | 6-2 | 195 | L | R | A- | | Knoch (Saxonburg,PA) | $175,000 |
| 7 | 203 | June-Reg | Shaun Stokes | P | 21 | 6-2 | 210 | R | R | A | | William Paterson University of New Jersey | $85,000 |
| 8 | 233 | June-Reg | Dan Moylan | C | 21 | 6-0 | 190 | L | R | AAA | | University of North Carolina | $85,000 |
| 9 | 263 | June-Reg | John Novinsky | P | 21 | 6-3 | 180 | R | R | AAA | | Iona College | $70,000 |
| 10 | 293 | June-Reg | Carmen Cali | P | 21 | 5-10 | 185 | L | L | MLB | 2004-2007 | Florida Atlantic University | $40,000 |
| 11 | 323 | June-Reg | John Gall | 1B | 22 | 6-0 | 195 | R | R | MLB | 2005-2007 | Stanford University | |
| 12 | 353 | June-Reg | Roddy Friar | C | 24 | 6-0 | 190 | R | R | A+ | | Colorado State University-Pueblo | |
| 13 | 383 | June-Reg | Matt Galante | 2B | 21 | 5-8 | 160 | R | R | A+ | | St. John's University | |
| 14 | 413 | June-Reg | Dee Haynes | LF | 22 | 6-0 | 205 | R | R | AAA | | Delta State University | |
| 15 | 443 | June-Reg | Chris Morris | CF | 20 | 5-8 | 180 | B | R | AA | | The Citadel | |
| 16 | 473 | June-Reg | Jutt Hileman | OF | 18 | 6-1 | 185 | R | R | A+ | | Palmyra (Palmyra,PA) | |
| 17 | 503** | June-Reg | Kaulana Kuhaulua | IF | 20 | 6-0 | 166 | R | R | AA | | Los Angeles Community College | |
| 18 | 533** | June-Reg | Marc LaMacchia | P | 18 | 6-0 | 195 | R | R | AA | | East Lake (Tarpon Springs,FL) | |
| 19 | 563 | June-Reg | Chet Medlock | P | 21 | 6-1 | 170 | R | R | A+ | | McNeese State University | |
| 20 | 593 | June-Reg | Landon Brandes | 3B | 21 | 6-1 | 185 | R | R | A+ | | University of Missouri | |
| 21 | 623 | June-Reg | Bryan Schultz | P | 22 | 6-1 | 180 | R | R | A | | University of Nevada | |
| 22 | 653 | June-Reg | Billy Schmitt | 1B | 17 | 6-1 | 205 | R | R | A- | | Green Valley (Henderson,NV) | |
| 23 | 683 | June-Reg | Mike Meyer | P | 22 | 6-2 | 180 | R | R | A+ | | University of Arizona | |
| 24 | 713 | June-Reg | John Lockhart | P | 21 | 6-1 | 195 | R | R | Rookie | | Centenary College | |
| 25 | 743 | June-Reg | Ryan Hamill | C | 21 | 6-0 | 200 | R | R | A+ | | UCLA | |
| 26 | 773 | June-Reg | Matt Dogero | C | 19 | 6-0 | 210 | R | R | A | | Santa Barbara City College | |
| 27 | 803** | June-Reg | Derek Roper | P | 19 | 6-6 | 200 | R | R | A | | Hutchinson Community College | |
| 28 | 833 | June-Reg | Bryan Grassing | P | 22 | 6-0 | 220 | R | R | A+ | | Saint Leo University | |
| 29 | 863 | June-Reg | David Lindsey | P | 21 | 6-4 | 225 | R | R | Rookie | | Loyola (NO) | |
| 30 | 893** | June-Reg | Mailon Kent | OF | 21 | 6-3 | 215 | R | R | A+ | | Auburn University | |
| 31 | 923 | June-Reg | Dan Firlit | SS | 21 | 6-1 | 195 | R | R | AA | | Missouri State University | |
| 32 | 953 | June-Reg | Dallas Pallaro | 2B | | | 0 | | | - | | Dixie State College of Utah | |
| 33 | 983 | June-Reg | Richie Burgess | P | 20 | 6-4 | 210 | R | R | A+ | | San Bernardino Valley College | |
| 34 | 1013 | June-Reg | Tyler Johnson | P | 19 | 6-2 | 180 | B | L | MLB | 2005-2007 | Moorpark College | |
| 35 | 1043 | June-Reg | John Santor | 1B | 18 | 6-1 | 215 | B | R | A+ | | Highland (Palmdale,CA) | |
| 36 | 1073 | June-Reg | Troy Grimmer | P | | | 0 | | | - | | Rex Putnam (Milwaukie,OR) | |
| 37 | 1103 | June-Reg | Matt Vriesenga | P | 22 | 6-5 | 190 | R | R | A | | Western Michigan University | |
| 38 | 1133 | June-Reg | Bruce Nelson | C | 21 | 6-0 | 180 | R | R | A- | | Rockhurst University | |
| 39 | 1163 | June-Reg | Preston Harriman | 3B | 20 | 6-0 | 180 | R | R | Ind | | North Arkansas College | |
| 40 | 1193 | June-Reg | Nathaniel Meza | P | 22 | 6-1 | 185 | R | R | A- | | Palomar College | |
| 41 | 1222 | June-Reg | Brian Fatur | CF | 21 | 6-0 | 180 | R | R | A+ | | Moorpark College | |
| 42 | 1251 | June-Reg | Ty Soto | | | | | | | College | | Centennial (Bakersfield,CA) | |
| 43 | 1280 | June-Reg | Adam Pritchard | | 18 | 6-2 | 200 | B | R | College | | Griffin (Griffin,GA) | |
| 44 | 1307 | June-Reg | Chad Cummings | | | | | | | College | | Saddleback College | |
| 45 | 1333 | June-Reg | Kelly Johnson | p | 20 | 6-1 | 220 | R | R | A | | Yavapai College | |
| 46 | 1357** | June-Reg | Matt Pender | P | 19 | 6-5 | 210 | R | R | A+ | | Middle Georgia College | |
| 47 | 1381 | June-Reg | Felipe Tetelboin | | 18 | 5-10 | 176 | R | R | College | | Grant (Van Nuys,CA) | |