| 1 | 21 | June-Reg | Boof Bonser | P | 18 | 6-4 | 230 | R | R | MLB | 2006-2008 | Gibbs (St. Petersburg,FL) | $1,245,000 |
| 2 | 61 | June-Reg | Lance Niekro | IF | 21 | 6-3 | 210 | R | R | MLB | 2003-2007 | Florida Southern College | $655,000 |
| 3 | 91 | June-Reg | Brion Treadway | P | 21 | 6-4 | 200 | R | R | AA | | University of North Carolina | $410,000 |
| 4 | 121 | June-Reg | Ryan Hannaman | P | 18 | 6-3 | 190 | L | L | A+ | | Murphy (Mobile,AL) | $185,000 |
| 5 | 151 | June-Reg | Kyle Gross | P | 21 | 6-4 | 212 | R | R | A+ | | Cuesta College | $145,000 |
| 6 | 181 | June-Reg | Chad Ashlock | P | 21 | 6-2 | 200 | R | R | A- | | Southern Nazarene University | $90,000 |
| 7 | 211 | June-Reg | Erick Threets | P | 18 | 6-5 | 220 | L | L | MLB | 2007-2008 | Modesto Junior College | $175,000 |
| 8 | 241 | June-Reg | Nick Wilfong | OF | 21 | 6-1 | 190 | L | R | A+ | | University of Missouri | $60,000 |
| 9 | 271 | June-Reg | Edwin Maldonado | IF | 21 | 6-0 | 175 | R | R | A+ | - | Oklahoma Christian University | $55,000 |
| 10 | 301 | June-Reg | Adam Shabala | OF | 22 | 6-1 | 190 | L | R | MLB | 2005-2005 | University of Nebraska | $2,500 |
| 11 | 331 | June-Reg | Jackson Markert | P | 21 | 6-6 | 215 | R | R | AA | | Oral Roberts University | |
| 12 | 361 | June-Reg | Elliot Strankman | SS | 23 | 6-1 | 185 | R | R | AA | | Lewis and Clark College | |
| 13 | 391** | June-Reg | Justin Knoedler | P | 19 | 6-2 | 205 | R | R | MLB | 2004-2006 | Lincoln Land Community College | |
| 14 | 421 | June-Reg | Jason Farmer | P | 21 | 6-2 | 200 | R | R | A+ | | Riverside Community College | |
| 15 | 451 | June-Reg | Matthew Faas | P | 23 | 6-2 | 205 | R | R | A- | | Florida Southern College | |
| 16 | 481 | June-Reg | Anthony Pannone | P | 18 | 6-3 | 210 | R | R | AAA | | Seward County Community College | |
| 17 | 511 | June-Reg | Rafael Rigueiro | P | 23 | 6-6 | 200 | R | R | A+ | | Southern Nazarene University | |
| 18 | 541 | June-Reg | Luke Anderson | P | 22 | 6-5 | 210 | R | R | AAA | | UNLV | |
| 19 | 571 | June-Reg | Daniel Padgett | P | 22 | 6-0 | 170 | L | L | A+ | | Northwestern University | |
| 20 | 601 | June-Reg | Jeff Clark | P | 20 | 6-6 | 240 | R | R | AA | | University of Connecticut | |
| 21 | 631** | June-Reg | Steve Gendron | SS | 18 | 6-3 | 199 | R | R | AA | | Berkeley Prep (Tampa,FL) | |
| 22 | 661 | June-Reg | Jason Ellison | OF | 22 | 5-10 | 180 | R | R | MLB | 2003-2008 | Lewis-Clark State College | |
| 23 | 691 | June-Reg | Robert King | P | 19 | 6-2 | 210 | R | R | Rookie | | Modesto Junior College | |
| 24 | 721 | June-Reg | Ralph Ralph | P | | | 0 | | | - | | Modesto Junior College | |
| 25 | 751 | June-Reg | Dan Trumble | IF | 20 | 6-2 | 205 | R | R | AA | | University of San Francisco | |
| 26 | 781 | June-Reg | Matt Larson | | 19 | 6-4 | 215 | R | R | A | | Golden West College | |
| 27 | 811** | June-Reg | Jino Gonzalez | P | 17 | 6-2 | 210 | L | L | AA | | Cimarron Memorial (Las Vegas,NV) | |
| 28 | 841** | June-Reg | Alex Hinshaw | P | 17 | 6-3 | 170 | L | L | MLB | 2008-2009 | Claremont (Claremont,CA) | |
| 29 | 871 | June-Reg | Dennis Hernandez | P | | | 0 | | | - | | | |
| 30 | 901 | June-Reg | Jason Pekar | CF | 21 | 6-2 | 225 | R | R | A- | | University of Houston | |
| 31 | 931 | June-Reg | Brian Burres | P | 19 | 6-1 | 165 | L | L | MLB | 2006-2009 | Mount Hood Community College | |
| 32 | 961 | June-Reg | Todd Uzzell | P | 22 | 6-3 | 205 | R | R | AA | | New Mexico State University | |
| 33 | 991 | June-Reg | Trey Lunsford | C | 21 | 6-1 | 195 | R | R | MLB | 2002-2003 | Texas Tech University | |
| 34 | 1021** | June-Reg | Jonathan Albaladejo | P | 17 | 6-5 | 210 | R | R | MLB | 2007-2009 | Colegio Janil (Vega Alta,PR) | |
| 35 | 1051 | June-Reg | Matthew Keating | 1B | 22 | 6-2 | 200 | L | R | A+ | | Northeastern University | |
| 36 | 1081 | June-Reg | Matthew Gibson | 1B | | | 0 | | | - | | Sarasota (Sarasota,FL) | |
| 37 | 1111 | June-Reg | Jeremy Schmidt | P | 20 | 6-2 | 190 | R | R | AA | | State College of Florida, Manatee-Sarasota | |
| 38 | 1141 | June-Reg | Elgin Graham | P | 22 | 6-2 | 185 | R | R | A | | Bethune-Cookman University | |
| 39 | 1171** | June-Reg | Greg Stone | IF | 19 | 6-0 | 180 | R | R | A+ | | Connors State College | |
| 40 | 1200 | June-Reg | Mark Walker | OF | 21 | 6-1 | 195 | R | R | AA | | University of Miami | |
| 41 | 1229** | June-Reg | Mike Cox | P | 21 | 5-11 | 195 | L | L | A+ | | St. Petersburg College | |
| 42 | 1258 | June-Reg | Bryan Carter | OF | 22 | 6-0 | 194 | L | L | AA | - | Embry-Riddle University | |
| 43 | 1286** | June-Reg | Craig Molldrem | | 18 | 6-6 | 205 | R | R | AAA | | Boscobel (Boscobel,WI) | |
| 44 | 1313 | June-Reg | Jason Daily | P | 18 | | 0 | | | - | | San Luis Obispo (San Luis Obispo,CA) | |
| 45 | 1339 | June-Reg | Calvin Fugett | 3B | | | 0 | | | College | | Montbello (Denver,CO) | |
| 46 | 1363** | June-Reg | Austin Allen | SS | 18 | 5-9 | 175 | R | R | - | | Beaverton (Beaverton,OR) | |
| 47 | 1386 | June-Reg | Bryan Gann | 2B | 22 | 5-10 | 175 | R | R | A | | Oral Roberts University | |
| 48 | 1406 | June-Reg | Lou Colletti | SS | | | 0 | | | - | | Timothy Christian (Elmhurst,IL) | |
| 49 | 1426** | June-Reg | Nick Conte | C | 18 | 5-10 | 175 | R | R | A | | Junipero Serra (San Mateo,CA) | |
| 50 | 1446 | June-Reg | Bennett Elder | C | | | 0 | | | - | | Lakeside (Atlanta,GA) | |