| Rnd | Ovl | Phase | Player Name | $$ | Pos | Age | Born | Ht | Wt | B | T | High Level | MLB Years | Drafted From |
| 1 | 2 | June-Reg | Rickie Weeks | $$ | 2B | 20 | 9/13/1982 | 6-0 | 195 | R | R | MLB | 2003-2008 | Southern University |
| 2 | 39 | June-Reg | Anthony Gwynn | $$ | OF | 20 | 10/4/1982 | 6-0 | 185 | L | R | MLB | 2006-2008 | San Diego State University |
| 3 | 69 | June-Reg | Lou Palmisano | $$ | C | 20 | 9/16/1982 | 6-1 | 185 | R | R | AA | | Broward Community College |
| 4 | 99 | June-Reg | Charlie Fermaint | $$ | OF | 17 | 10/11/1985 | 5-10 | 170 | R | R | A+ | | Jose S Alegria (Jose S Alegria,Vega Alta,PR) |
| 5 | 129 | June-Reg | Bryan Opdyke | | C | 18 | 8/7/1984 | 6-2 | 190 | L | R | Rookie | | Catalina Foothills High School (Tucson,AZ) |
| 6 | 159 | June-Reg | Robbie Wooley | | P | 18 | 12/7/1984 | 6-1 | 190 | R | R | A | | Taylor High School (Kokomo,IN) |
| 7 | 189 | June-Reg | Brian Montalbo | | P | 21 | 11/22/1981 | 6-4 | 210 | B | R | A | | University of California |
| 8 | 219 | June-Reg | Ryan Marion | | P | 18 | 9/23/1984 | 6-1 | 200 | R | R | A | | Glenn High School (Kernersville,NC) |
| 9 | 249 | June-Reg | Greg Kloosterman | | P | 21 | 6/21/1982 | 6-3 | 205 | L | L | A | | Bethel High School (Bethel,IN) |
| 10 | 279 | June-Reg | Tyler Morrison | | P | 18 | 5/1/1985 | 6-0 | 200 | R | R | Rookie | | Glendora High School (Glendora,CA) |
| 11 | 309 | June-Reg | Adam Heether | | 3B | 21 | 1/14/1982 | 6-0 | 200 | R | R | AAA | | Long Beach State University |
| 12 | 339 | June-Reg | Carlos Corporan | | 1B | 19 | 1/7/1984 | 6-3 | 210 | B | R | AA | | Lake City Community College |
| 13 | 369** | June-Reg | Daniel Cannon | | OF | 18 | 8/19/1984 | 6-1 | 195 | L | L | - | | |
| 14 | 399 | June-Reg | Garrett Bussiere | | C | 17 | 8/28/1985 | 6-3 | 178 | R | R | Rookie | | Northglenn High School (Northglenn,CO) |
| 15 | 429 | June-Reg | Joel Rivera | | OF | 17 | 10/19/1985 | 6-1 | 165 | R | R | Rookie | | Hoboken High School (Hoboken,NJ) |
| 16 | 459 | June-Reg | Mitch Stetter | | P | 22 | 1/16/1981 | 6-4 | 195 | L | L | MLB | 2007-2008 | Indiana State University |
| 17 | 489 | June-Reg | Tommy Hawk | | P | 18 | 2/7/1985 | 6-2 | 215 | R | R | A | | Cabrillo High School (Lompoc,CA) |
| 18 | 519 | June-Reg | Oscar Montes | | P | 18 | 2/10/1985 | 6-3 | 220 | R | R | Rookie | | Flanagan High School (Pembroke Pines,FL) |
| 19 | 549 | June-Reg | Ty Taubenheim | | P | 20 | 11/17/1982 | 6-5 | 235 | R | R | MLB | 2006-2007 | Edmonds Community College |
| 20 | 579 | June-Reg | Nick Slack | | P | 20 | 1/5/1983 | 6-1 | 215 | R | R | A+ | | Lake City Community College |
| 21 | 609 | June-Reg | Taylor Meier | | P | 18 | 4/2/1985 | 6-6 | 205 | R | R | College | | Orangewood Christian High School (Maitland,FL) |
| 22 | 639 | June-Reg | Terry Trofholz | | OF | 22 | 9/11/1980 | 6-2 | 190 | R | R | A | | Texas Christian University |
| 23 | 669** | June-Reg | Jon Mungle | | OF | 21 | 10/29/1981 | 6-1 | 217 | L | R | Ind | | Mississippi State University |
| 24 | 699 | June-Reg | Drew Anderson | | OF | 22 | 6/9/1981 | 6-2 | 205 | L | R | MLB | 2006-2006 | University of Nebraska |
| 25 | 729 | June-Reg | Jared Theodorakos | | P | 22 | 3/15/1981 | 6-3 | 240 | L | L | Rookie | | Baylor University |
| 26 | 759 | June-Reg | Hasan Rasheed | | OF | 19 | 1/26/1984 | 5-8 | 175 | L | L | A+ | | Lake City Community College |
| 27 | 789 | June-Reg | Daniel McKenna | | P | 22 | 1/30/1981 | 6-4 | 205 | R | R | A | | Rutgers, The State Univ. of New Jersey, Camden |
| 28 | 819 | June-Reg | Kenny Durost | | P | 21 | 10/10/1981 | 6-4 | 188 | R | R | A+ | | Lubbock Christian University |
| 29 | 849 | June-Reg | Ricky Stover | | P | 21 | 1/26/1982 | 6-6 | 205 | L | L | Ind | | University of Texas-Arlington |
| 30 | 879 | June-Reg | Robby Deevers | | OF | 23 | 6/23/1980 | 6-0 | 205 | R | R | A+ | | University of Texas-Arlington |
| 31 | 909** | June-Reg | Sheldon Catchot | | P | 18 | 7/4/1984 | 6-0 | 175 | L | L | - | | North Shore High School (Slidell,LA) |
| 32 | 939 | June-Reg | Will Lewis | | 2B | 21 | 8/18/1981 | 5-10 | 180 | R | R | A | | Texas Christian University |
| 33 | 969 | June-Reg | Chad Miller | | 1B | 18 | 2/28/1985 | 6-2 | 225 | R | R | - | | Mesquite High School (Gilbert,AZ) |
| 34 | 999 | June-Reg | Dan Grybash | | P | 22 | 12/26/1980 | 6-1 | 205 | R | R | A+ | | Carthage College |
| 35 | 1029 | June-Reg | Phillip Hendrix | | P | 22 | 6/5/1981 | 6-0 | 170 | R | R | Ind | | Virginia Military Institute |
| 36 | 1059 | June-Reg | Joe Ayers | | SS | | | | | | | College | | Juneau Douglas High School (Juneau,AK) |
| 37 | 1089 | June-Reg | Justin Wilson | | P | 21 | 5/22/1982 | 6-2 | 195 | L | L | Rookie | | Chandler-Gilbert Community College |
| 38 | 1119 | June-Reg | Brent Weaver | | P | 18 | 3/2/1985 | 6-1 | 175 | R | R | - | | Midwest City High School (Midwest City,OK) |
| 39 | 1149 | June-Reg | Wes Yeary | | P | 18 | 12/19/1984 | 6-1 | 185 | R | R | - | | Leon High School (Tallahassee,FL) |
| 40 | 1179 | June-Reg | Robert Hinton | | P | 18 | 8/13/1984 | 6-2 | 180 | R | R | AA | | Riverview High School (Sarasota,FL) |
| 41 | 1209 | June-Reg | Evan Baubles | | C | 19 | 6/15/1984 | 6-0 | 185 | R | R | - | | Wall High School (Wall Township,NJ) |
| 42 | 1238 | June-Reg | Zach Kohan | | SS | 18 | 4/20/1985 | 5-11 | 180 | R | R | - | | Juneau Douglas High School (Juneau,AK) |
| 43 | 1267** | June-Reg | Daryl Maday | | P | 17 | 8/12/1985 | 6-2 | 225 | R | R | AA | | Westocha Central High School (Bristol,WI) |
| 44 | 1295 | June-Reg | Raynel Robles-Encarnacion | | 2B | 18 | 11/18/1984 | 6-1 | 190 | R | R | - | | Florida Air Academy (Florida Air Academy,Santo Domingo,D.R.) |
| 45 | 1323 | June-Reg | Tim Grubbs | | P | 18 | 8/19/1984 | 6-4 | 175 | R | R | - | | Lake City Community College |
| 46 | 1350 | June-Reg | Clay Blevins | | C | 20 | 5/1/1983 | 6-1 | 190 | L | R | A+ | | Cowley County Community College |
| 47 | 1377 | June-Reg | Ryan Zink | | P | 18 | 4/1/1985 | 6-4 | 210 | R | R | A | | Lafollette High School (Madison,WI) |
| 48 | 1404 | June-Reg | Calvin Thompson | | OF | 18 | 5/7/1985 | 6-2 | 190 | R | R | - | | Shaw High School (East Cleveland,OH) |
| 49 | 1430 | June-Reg | Justin Sarka | | P | 18 | 9/9/1984 | 6-4 | 208 | R | R | - | | Englewood High School (Jacksonville,FL) |
| 50 | 1456 | June-Reg | Luis Pardo | | P | 17 | 7/14/1985 | 6-5 | 230 | R | R | College | | Westminster High School (Palmetto Bay,FL) |
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