| 2 | 60 | June-Reg | Freddie Bynum | IF | 20 | 6-1 | 180 | L | R | MLB | 2005-2008 | Pitt Community College | $500,000 |
| 3 | 90 | June-Reg | Daylan Holt | OF | 21 | 6-1 | 200 | R | R | AAA | | Texas A&M University | $450,000 |
| 4 | 120 | June-Reg | Kevin McGerry | P | 20 | 6-3 | 215 | R | R | A+ | | St. John's University | $225,000 |
| 5 | 150** | June-Reg | Kenny Baugh | P | 21 | 6-4 | 190 | R | R | AAA | | Rice University | |
| 6 | 180 | June-Reg | Beau Craig | C | 21 | 5-10 | 170 | B | R | AAA | | USC | $287,500 |
| 7 | 210 | June-Reg | Marc Gwyn | P | 22 | 6-3 | 210 | R | R | MLB | 2007-2007 | Rice University | $27,500 |
| 8 | 240 | June-Reg | Kyle Crowell | P | 21 | 6-0 | 190 | R | R | AAA | | University of Houston | $75,000 |
| 9 | 270 | June-Reg | Marshall McDougall | IF | 21 | 6-1 | 200 | R | R | MLB | 2005-2005 | Florida State University | $15,000 |
| 10 | 300 | June-Reg | Derell McCall | P | 18 | 6-3 | 205 | R | R | AA | | Tate (Cantonment,FL) | $50,000 |
| 11 | 330 | June-Reg | Matt Bowser | OF | 21 | 6-3 | 205 | L | L | AA | - | University of Central Florida | |
| 12 | 360** | June-Reg | Steve Ellis | P | 21 | 6-2 | 205 | R | R | A+ | | Bradley University | |
| 13 | 390** | June-Reg | Luke Grayson | 2B | 17 | 5-10 | 180 | R | R | AA | | Oviedo (Oviedo,FL) | |
| 14 | 420 | June-Reg | Mike Ziegler | P | 20 | 6-3 | 225 | R | R | AAA | | Florida State University | |
| 15 | 450 | June-Reg | Kevin Barry | P | 21 | 6-2 | 215 | R | R | MLB | 2006-2007 | Rider University | |
| 16 | 480 | June-Reg | Chris Scarcella | P | 21 | 6-2 | 206 | R | R | A- | | Texas A&M University | |
| 17 | 510 | June-Reg | Rich Harden | P | 18 | 6-1 | 180 | L | R | MLB | 2003-2009 | Central Arizona College | |
| 18 | 540 | June-Reg | Matt O'Brien | P | 23 | 5-10 | 170 | L | L | AAA | | Washington State University | |
| 19 | 570 | June-Reg | Chris Tritle | OF | 18 | 6-3 | 218 | R | R | A+ | | Center Point-Urbana (Center Point,IA) | |
| 20 | 600** | June-Reg | John Hudgins | P | 18 | 6-2 | 195 | R | R | AAA | | Mission Viejo (Mission Viejo,CA) | |
| 21 | 630** | June-Reg | Kip Bouknight | P | 21 | 6-0 | 190 | R | R | AAA | | University of South Carolina | |
| 22 | 660 | June-Reg | John Suomi | | 19 | 5-11 | 180 | L | R | AAA | | University College-Canada (University College-Canada) | |
| 23 | 690 | June-Reg | Dan Jackson | P | 21 | 6-2 | 210 | R | R | AA | | Florida Atlantic University | |
| 24 | 720 | June-Reg | Steve Fischer | P | 22 | 6-0 | 200 | R | R | AA | | University of the Pacific | |
| 25 | 750 | June-Reg | T.Jay Gilpatrick | P | 21 | 6-3 | 215 | R | R | A+ | | Mesa State College | |
| 26 | 780 | June-Reg | Conor Brooks | P | 22 | 6-1 | 190 | L | R | AA | | Dartmouth College | |
| 27 | 810 | June-Reg | Otis Kelly | 1B | 21 | 6-2 | 221 | R | R | A+ | | University of South Carolina | |
| 28 | 840** | June-Reg | Sammy Hewitt | 3B | 19 | 6-3 | 205 | R | R | College | | Lenoir-Rhyne College | |
| 29 | 870 | June-Reg | Ron Flores | P | 20 | 5-11 | 190 | L | L | MLB | 2005-2007 | USC | |
| 30 | 900 | June-Reg | Joseph Cirone | LF | 22 | 6-3 | 215 | R | R | A- | | Rutgers University | |
| 31 | 930 | June-Reg | Dan Valentin | P | 22 | 6-3 | 230 | R | R | AAA | | Liberty University | |
| 32 | 960** | June-Reg | Bryan Moore | 1B | 20 | 6-2 | 225 | L | L | A | | Indian River State College | |
| 33 | 990 | June-Reg | Anthoney Bennett | P | | | 0 | | | - | | Blue Mountain Community College | |
| 34 | 1020 | June-Reg | Rob Findlay | | 19 | 6-3 | 225 | R | R | Rookie | | Seminole Community College | |
| 35 | 1050 | June-Reg | Shannon Telles | OF | | | 0 | | | - | | Waianae (Waianae,HI) | |
| 36 | 1080 | June-Reg | Mike Serrata | CF | 18 | 6-0 | 185 | L | L | Ind | | Hueneme (Oxnard,CA) | |
| 37 | 1110 | June-Reg | Derek Wilson | | | | | | | College | | Mount San Antonio College | |
| 38 | 1140 | June-Reg | Domanic Roses | P | | | 0 | | | - | | Mount Hood Community College | |
| 39 | 1170 | June-Reg | James Garvey | P | | | 0 | | | - | | La Quinta (Westminster,CA) | |
| 40 | 1199 | June-Reg | Richard Rodarmel | P-3B | 23 | 5-10 | 190 | R | R | A+ | | Shippensburg University of Pennsylvania | |
| 41 | 1228** | June-Reg | Karl Jernigan | OF | 21 | 6-2 | 195 | R | R | A | | Florida State University | |
| 42 | 1257** | June-Reg | Jeff Carlsen | P | 21 | 6-6 | 230 | R | R | A- | | University of Washington | |
| 43 | 1285 | June-Reg | Jonathan Shirley | P | | | 0 | | | - | | Cal State Bakersfield | |
| 44 | 1312** | June-Reg | Jordan Devoir | IF-OF | 17 | 6-3 | 210 | R | R | A | | Southridge (Kennewick,WA) | |
| 45 | 1338 | June-Reg | John Voita | | 18 | 6-0 | 200 | R | R | College | | Granada Hills (Granada Hills,CA) | |
| 46 | 1362** | June-Reg | Fernando De Aza | p | 19 | 6-3 | 200 | R | R | Ind | | Wabash Valley College | |