| 1 | 2 | June-Reg | Mark Prior | P | 20 | 6-5 | 225 | R | R | MLB | 2002-2006 | USC | $4,600,000 |
| 2 | 46 | June-Reg | Andy Sisco | P | 18 | 6-9 | 250 | L | L | MLB | 2005-2007 | Eastlake (Sammamish,WA) | $800,000 |
| 3 | 78 | June-Reg | Ryan Theriot | IF | 21 | 5-11 | 175 | B | R | MLB | 2005-2009 | Louisiana State University | $472,500 |
| 4 | 108 | June-Reg | Ricky Nolasco | P | 18 | 6-2 | 220 | R | R | MLB | 2006-2009 | Rialto (Rialto,CA) | $335,000 |
| 5 | 138 | June-Reg | Brendan Harris | IF | 20 | 6-1 | 195 | R | R | MLB | 2004-2009 | College of William and Mary | $210,000 |
| 6 | 168 | June-Reg | Adam Wynegar | P | 20 | 6-1 | 180 | L | L | A+ | | James Madison University | $158,000 |
| 7 | 198 | June-Reg | Sergio Mitre | P | 20 | 6-4 | 210 | R | R | MLB | 2003-2009 | San Diego Community College | $83,000 |
| 8 | 228 | June-Reg | Warren Hanna | C | 21 | 6-1 | 200 | R | R | A | - | University of South Alabama | $170,000 |
| 9 | 258** | June-Reg | Alan Bomer | P | 21 | 6-3 | 200 | R | R | A- | | Iowa State University | |
| 10 | 288 | June-Reg | Corey Slavik | IF | 21 | 6-0 | 190 | B | L | AAA | - | Wake Forest University | $23,000 |
| 11 | 318 | June-Reg | Geovany Soto | C-1B | 18 | 6-1 | 190 | R | R | MLB | 2005-2009 | American Military Acad. (San Juan,PR) | |
| 12 | 348 | June-Reg | Jason Blanton | P | 21 | 6-4 | 235 | R | R | A+ | | North Carolina State University | |
| 13 | 378 | June-Reg | Tony Garcia | IF | 21 | 5-10 | 165 | R | R | A+ | | Pepperdine University | |
| 14 | 408** | June-Reg | Khalil Greene | SS | 21 | 5-11 | 210 | R | R | MLB | 2003-2009 | Clemson University | |
| 15 | 438 | June-Reg | Kevin Hairr | OF | 22 | 5-11 | 185 | L | R | A- | | University of North Carolina at Wilmington | |
| 16 | 468 | June-Reg | Dwaine Bacon | OF | 22 | 6-0 | 185 | B | R | AAA | | Florida A&M University | |
| 17 | 498 | June-Reg | Nick Martin | P | 21 | 6-3 | 195 | L | L | AAA | | Rice University | |
| 18 | 528 | June-Reg | Steve Ellis | P | 22 | 6-2 | 205 | R | R | A+ | | Bradley University | |
| 19 | 558 | June-Reg | Mark Carter | P | 21 | 6-4 | 220 | L | L | A+ | | University of Alabama | |
| 20 | 588 | June-Reg | Joshua Arteaga | IF | 21 | 5-9 | 170 | R | R | AAA | | Virginia Commonwealth University | |
| 21 | 618 | June-Reg | Brad Bouras | IF | 21 | 6-3 | 235 | R | R | A+ | | Columbus State University | |
| 22 | 648 | June-Reg | Jeff Carlsen | P | 22 | 6-6 | 230 | R | R | A- | | University of Washington | |
| 23 | 678 | June-Reg | B.J. Benik | P | 22 | 6-1 | 190 | R | R | AA | | Seton Hall University | |
| 24 | 708 | June-Reg | Luis Reyes | P | 20 | 6-0 | 200 | R | R | A+ | | East Central College (Revittown,PR) | |
| 25 | 738 | June-Reg | Eric Servais | C | 21 | 6-0 | 185 | L | R | A- | | University of Wisconsin-La Crosse | |
| 26 | 768 | June-Reg | Jesse Krause | | 18 | 6-2 | 185 | L | R | Ind | | Columbia City (Columbia City,IN) | |
| 27 | 798 | June-Reg | Chad Farr | P | 18 | 6-2 | 220 | L | L | - | | Christian Brothers (Memphis,TN) | |
| 28 | 828** | June-Reg | Tony Sipp | P | 17 | 6-0 | 185 | L | L | MLB | 2009-2009 | Moss Point (Moss Point,MS) | |
| 29 | 858 | June-Reg | Rick Devinney | C | 17 | 6-2 | 190 | R | R | Rookie | | Western (Anaheim,CA) | |
| 30 | 888** | June-Reg | Kyle Dubois | P | 18 | 6-4 | 230 | R | R | College | | Frank W. Cox (Virginia Beach,VA) | |
| 31 | 918 | June-Reg | Dan Foli | P | 20 | 6-1 | 180 | R | R | AAA | | Walters State Community College | |
| 32 | 948** | June-Reg | Jeff Larish | OF-1B | 18 | 6-2 | 195 | L | R | MLB | 2008-2009 | McClintock (Tempe,AZ) | |
| 33 | 978** | June-Reg | Brian Stavisky | OF | 20 | 6-3 | 220 | L | R | AAA | | University of Notre Dame | |
| 34 | 1008** | June-Reg | Charlie Isaacson | P | 21 | 6-2 | 190 | R | R | AAA | | University of Arkansas | |
| 35 | 1038 | June-Reg | Justin Mccarty | | | | | | | College | | Wichita State University | |
| 36 | 1068 | June-Reg | Aaron O'Dell | P | | | 0 | | | - | | Bend (Bend,OR) | |
| 37 | 1098 | June-Reg | Edwar Gonzalez | OF | 18 | 5-10 | 200 | R | R | AA | | Seminole Community College | |
| 38 | 1128 | June-Reg | Jeff Teasley | | 18 | 6-6 | 250 | R | R | A+ | | Grossmont (El Cajon,CA) | |
| 39 | 1158** | June-Reg | Jesse Chavez | P | 17 | 6-2 | 153 | R | R | MLB | 2008-2009 | Miller (Fontana,CA) | |
| 40 | 1188** | June-Reg | Matt Pagnozzi | C | 18 | 6-3 | 200 | R | R | MLB | 2009-2009 | Highland (Gilbert,AZ) | |
| 41 | 1217** | June-Reg | Wes Whisler | | 18 | 6-5 | 235 | L | L | MLB | 2009-2009 | Noblesville (Noblesville,IN) | |
| 42 | 1246** | June-Reg | Mark Jecmen | | 18 | 6-8 | 235 | R | R | A | | Diamond Bar (Diamond Bar,CA) | |
| 43 | 1274** | June-Reg | Kevin Culpepper | P | 19 | 6-5 | 190 | R | L | A | | Stephens County (Toccoa,GA) | |
| 44 | 1302 | June-Reg | Jared Eichelberger | P | 17 | 6-7 | 210 | R | R | A- | | Marian Catholic (San Diego,CA) | |
| 45 | 1330 | June-Reg | Jamil Knight | P | 18 | 6-4 | 200 | R | R | College | | Shelton State Community College | |
| 46 | 1358** | June-Reg | Chris Niesel | P | 18 | 5-11 | 195 | R | R | AAA | | St. Thomas Aquinas (Fort Lauderdale,FL) | |
| 47 | 1386 | June-Reg | Taylor Gartz | | 18 | 6-3 | 180 | L | L | College | | Clear Lake (Houston,TX) | |
| 48 | 1413** | June-Reg | Kevin Randel | SS | 20 | 6-1 | 180 | L | R | AAA | | Riverside Community College | |
| 49 | 1439 | June-Reg | Mike Pete | P | 18 | 5-11 | 183 | L | L | A+ | | Armwood (Seffner,FL) | |
| 50 | 1464** | June-Reg | Patrick Mcintyre | C | 18 | 6-0 | 200 | R | R | A- | | Vallivue (Caldwell,ID) | |