| 1 | 28 | June-Reg | Matt Roney | P | 18 | 6-3 | 232 | R | R | MLB | 2003-2006 | Edmond North (Edmond,OK) | $1,012,500 |
| 1 | 36 | June-Reg | Choo Freeman | OF | 18 | 6-2 | 200 | R | R | MLB | 2004-2006 | University of Dallas | $1,400,000 |
| 1 | 40 | June-Reg | Jeff Winchester | C | 18 | 5-11 | 211 | R | R | AA | | | $537,500 |
| 2 | 60 | June-Reg | Jermaine Van Buren | P | 17 | 6-1 | 220 | R | R | MLB | 2005-2006 | Hattiesburg (Hattiesburg,MS) | |
| 2 | 71 | June-Reg | Jody Gerut | OF | 20 | 6-0 | 190 | L | L | MLB | 2003-2009 | Stanford University | |
| 3 | 90 | June-Reg | Kevin Gordon | P | 21 | 6-3 | 200 | R | R | A | | University of Central Florida | |
| 4 | 120 | June-Reg | Luke Hudson | P | 21 | 6-3 | 195 | R | R | MLB | 2002-2007 | University of Tennessee | |
| 5 | 150** | June-Reg | Ryan Shealy | 1B | 18 | 6-5 | 240 | R | R | MLB | 2005-2008 | | |
| 6 | 180 | June-Reg | Javier Guzman | SS | 16 | 5-11 | 140 | R | R | AA | | University of Rio Piedras (PR) | |
| 7 | 210 | June-Reg | Matt Holliday | 3B | 18 | 6-4 | 235 | R | R | MLB | 2004-2009 | Stillwater (Stillwater,OK) | $885,000 |
| 8 | 240 | June-Reg | Justin Lincoln | IF | 19 | 6-3 | 206 | R | R | A+ | | State College of Florida, Manatee-Sarasota | |
| 9 | 270 | June-Reg | Justin Carter | P | 21 | 6-2 | 185 | R | L | A+ | | University of South Alabama | |
| 10 | 300** | June-Reg | Andrew Beinbrink | IF | 21 | 6-3 | 212 | R | R | AAA | | Arizona State University | |
| 11 | 330 | June-Reg | Ryan Cameron | P | 20 | 6-1 | 180 | R | R | AAA | | University of Massachusetts | |
| 12 | 360 | June-Reg | Brian Brantley | P | 22 | 6-4 | 166 | R | R | AA | | Old Dominion University | |
| 13 | 390 | June-Reg | Juan Pierre | OF | 20 | 6-0 | 180 | L | L | MLB | 2000-2009 | University of South Alabama | |
| 14 | 420 | June-Reg | Vernand Morency | OF | 18 | 5-11 | 220 | R | R | A- | | Northwestern University | |
| 15 | 450 | June-Reg | Mark DiFelice | P | 21 | 6-1 | 190 | R | R | MLB | 2008-2009 | Western Carolina University | |
| 16 | 480 | June-Reg | Brandon Garner | P | 18 | 6-0 | 190 | R | R | A- | | Jackson Central (Jackson,TN) | |
| 17 | 510 | June-Reg | Josh Etheredge | | 22 | 6-2 | 210 | R | R | A- | | Auburn University | |
| 18 | 540 | June-Reg | Jase Wrigley | P | 22 | 6-3 | 215 | R | R | AAA | | Georgia Tech | |
| 19 | 570 | June-Reg | Doug Thompson | P | 21 | 6-1 | 195 | R | R | AAA | | Louisiana State University | |
| 20 | 600 | June-Reg | Tom Whitehurst | OF | 20 | 5-11 | 175 | R | R | A | | University of South Alabama | |
| 21 | 630 | June-Reg | Erik Johnson | C | 21 | 5-11 | 195 | R | R | A+ | | University of Central Florida | |
| 22 | 660 | June-Reg | Ryan LaMattina | P | 22 | 6-2 | 210 | L | L | A+ | | St. Bonaventure University | |
| 23 | 690 | June-Reg | Richy Leon | SS | 22 | 5-8 | 175 | R | R | A | | Arizona State University | |
| 24 | 720 | June-Reg | Mike Mundy | P | 22 | 6-1 | 185 | L | R | A | | Rutgers University | |
| 25 | 750 | June-Reg | Kevin Duck | 1B | 20 | 6-3 | 210 | L | L | A | | Cal State Fullerton | |
| 26 | 780 | June-Reg | J.J. Durmanich | | 19 | 6-2 | 175 | R | R | College | | Merced College | |
| 27 | 810** | June-Reg | Manases Pabon | CF | | | 0 | | | - | | Indian Hills Community College-Centerville | |
| 28 | 840** | June-Reg | 0 - | P | | | | | | AAA | | - | |
| 29 | 870 | June-Reg | Aaron Geralds | OF | | | 0 | | | - | | Madison Central (Madison,WI) | |
| 30 | 900** | June-Reg | James Hymon | SS | 18 | 6-0 | 170 | R | R | Ind | | Leo (Chicago,IL) | |
| 31 | 930** | June-Reg | Mark Woodyard | P | 19 | 6-2 | 185 | R | R | MLB | 2005-2005 | Northwest Florida State College | |
| 32 | 960 | June-Reg | Gregory Colbrun | P | | | 0 | | | - | | Skyview (Billings,MT) | |
| 33 | 990 | June-Reg | Rocky Kirk | P | | | 0 | | | - | | Cochise County (Casper,WY) | |
| 34 | 1020 | June-Reg | Paul Miller | P | | | | | | - | | Pleasure Ridge Park (Louisville,KY) | |
| 35 | 1050 | June-Reg | Ryan Truxall | P | 19 | 6-2 | 176 | R | R | - | | Miami-Dade College | |
| 36 | 1080 | June-Reg | Geoffrey Boutelier | P | | | 0 | | | - | | Cypress College | |
| 37 | 1110** | June-Reg | Ryan Wardinsky | 2B | 18 | 6-1 | 180 | B | R | A+ | | Flathead (Kalispell,MT) | |
| 38 | 1140** | June-Reg | T.J. Bird | OF | 19 | 5-11 | 209 | L | L | A | - | Cloverdale (Cloverdale,CA) | |
| 39 | 1170 | June-Reg | Dave Bernstine | 1B | 17 | 6-1 | 220 | R | R | Ind | | Vallejo (Vallejo,CA) | |
| 40 | 1200 | June-Reg | Joe Simpson | OF | 19 | 6-2 | 190 | R | R | Rookie | | Fairfield (Fairfield,OH) | |
| 41 | 1230** | June-Reg | Bryce Coppieters | | | | | | | College | | Raymond (Canada) | |
| 42 | 1260** | June-Reg | Nyjer Morgan | CF | 17 | 6-0 | 180 | L | L | MLB | 2007-2009 | Store Front (Canada.) | |
| 43 | 1288 | June-Reg | Douglas Baylor | OF | | | 0 | | | - | | John H. Reagan (Austin,TX) | |
| 45 | 1338 | June-Reg | Frank Haase | P | 18 | 6-3 | 175 | R | L | A- | | Merced College | |
| 46 | 1361 | June-Reg | Josh Mccanne | | | | | | | College | | Mammoth (Mammoth Lakes,CA) | |