| Rnd | Ovl | Phase | Player Name | $$ | Pos | Age | Born | Ht | Wt | B | T | High Level | MLB Years | Drafted From |
| 1 | 8 | June-Reg | Paul Maholm | $$ | P | 21 | 6/25/1982 | 6-2 | 215 | L | L | MLB | 2005-2008 | Mississippi State University |
| 2 | 45 | June-Reg | Tom Gorzelanny | $$ | P | 20 | 7/12/1982 | 6-3 | 200 | B | L | MLB | 2005-2008 | Triton College |
| 3 | 75 | June-Reg | Steve Lerud | $$ | C | 18 | 10/13/1984 | 6-1 | 205 | L | R | A+ | | Galena High School (Reno,NV) |
| 4 | 105 | June-Reg | Kyle Pearson | | P | 18 | 10/8/1984 | 6-1 | 180 | R | R | AA | | Mosley High School (Panama City,FL) |
| 5 | 135 | June-Reg | Craig Stansberry | | 3B | 21 | 3/8/1982 | 6-0 | 185 | R | R | MLB | 2007-2008 | Rice University |
| 6 | 165** | June-Reg | C.J. Smith | | 1B | 21 | 2/22/1982 | 6-4 | 212 | R | R | A | | University of Florida |
| 7 | 195 | June-Reg | Russ Johnson | | P | 18 | 1/6/1985 | 6-2 | 200 | L | R | A+ | | Benjamin Russell High School (Alexander City,AL) |
| 8 | 225 | June-Reg | Sergio Silva | | P | 21 | 12/22/1981 | 6-4 | 205 | R | R | A | | University of the Pacific |
| 9 | 255 | June-Reg | Kent Wulf | | 2B | 18 | 4/26/1985 | 5-11 | 175 | R | R | A- | | Quartz Hill High School (Quartz Hill,CA) |
| 10 | 285 | June-Reg | John Peabody | | OF | 17 | 8/24/1985 | 6-4 | 215 | R | R | A- | | Rancho Bernardo High School (San Diego,CA) |
| 11 | 315 | June-Reg | John Santiago | | 3B | 18 | 12/26/1984 | 6-0 | 160 | R | R | A | | Nuestra Senora Del Carmen (Nuestra Senora Del Carmen,Trujillo Alto,PR) |
| 12 | 345 | June-Reg | Adam Boeve | | OF | 23 | 6/20/1980 | 6-1 | 205 | R | R | AAA | | University of Northern Iowa |
| 13 | 375 | June-Reg | Lee Land | | P | 18 | 8/7/1984 | 6-2 | 220 | R | R | A- | | Riverside High School (Durham,NC) |
| 14 | 405 | June-Reg | Jacob Cuffman | | P | 18 | 3/3/1985 | 6-4 | 190 | R | R | A+ | | Butler High School (Butler,PA) |
| 15 | 435 | June-Reg | Dustin Molleken | | P | 18 | 8/21/1984 | 6-4 | 210 | L | R | A+ | | Lethbridge (Alberta) Community College |
| 16 | 465 | June-Reg | Justin Harris | | SS | 22 | 5/25/1981 | 6-0 | 170 | R | R | A+ | | University of South Carolina |
| 17 | 495 | June-Reg | Steven Herce | | P | 22 | 3/23/1981 | 6-3 | 220 | R | R | A- | | Rice University |
| 18 | 525 | June-Reg | Pedro Powell | | OF | 19 | 5/20/1984 | 5-7 | 150 | R | R | AA | | Middle Georgia College |
| 19 | 555 | June-Reg | Dallas Buck | | P | 18 | 11/11/1984 | 6-2 | 195 | R | R | A+ | | Newberg High School (Newberg,OR) |
| 20 | 585 | June-Reg | Brett Holmes | | OF | 22 | 3/13/1981 | 6-2 | 190 | R | R | A | | Auburn University Montgomery (Ala.) |
| 21 | 615** | June-Reg | Clayton Hamilton | | P | 21 | 6/15/1982 | 6-5 | 200 | R | R | AA | | Penn State University |
| 22 | 645 | June-Reg | Chris Hernandez | | P | 22 | 8/3/1980 | 5-11 | 200 | R | R | AAA | | University of South Carolina |
| 23 | 675 | June-Reg | Gregory Picart | | SS | 17 | 9/25/1985 | 5-11 | 155 | B | R | A+ | | Adela Brenes Texidor (Adela Brenes Texidor,Guayama,PR) |
| 24 | 705 | June-Reg | Josh Sharpless | | P | 22 | 1/26/1981 | 6-6 | 230 | R | R | MLB | 2006-2007 | Community College of Allegheny County |
| 25 | 735 | June-Reg | Matt Downs | | P | 19 | 3/19/1984 | 6-2 | 190 | R | R | A+ | | Shelton State Community College |
| 26 | 765 | June-Reg | Owen Williams | | P | 19 | 9/23/1983 | 6-1 | 180 | L | L | - | | Edmonds Community College |
| 27 | 795 | June-Reg | Clegg Snipes | | P | 18 | 3/8/1985 | 6-2 | 195 | R | R | Rookie | | Lincoln High School (Tallahassee,FL) |
| 28 | 825 | June-Reg | Matthew Creighton | | P | 19 | 11/23/1983 | 6-5 | 200 | L | L | - | | Meridian College |
| 29 | 855 | June-Reg | James Van Ostrand | | OF | 18 | 8/7/1984 | 6-4 | 210 | R | R | A+ | | Allan Hancock College |
| 30 | 885 | June-Reg | Joey Friddle | | SS | 19 | 3/10/1984 | 5-11 | 165 | R | R | College | | Young Harris College |
| 31 | 915 | June-Reg | Cody Doonan | | P | 19 | 2/19/1984 | 6-2 | 180 | R | R | - | | Kirkwood Community College |
| 32 | 945** | June-Reg | Sean Coughlin | | C | 18 | 5/14/1985 | 6-1 | 215 | L | R | A | | Golden High School (Golden,CO) |
| 33 | 975 | June-Reg | Nicholas Palmisano | | 1B | 19 | 10/21/1983 | 6-2 | 215 | L | L | - | | Broward Community College |
| 34 | 1005** | June-Reg | Jeremy Horst | | P | 17 | 10/1/1985 | 6-4 | 225 | L | L | A | | Des Lacs-Burlington High School (Des Lacs,ND) |
| 35 | 1035 | June-Reg | Nick Colborn | | P | 19 | 11/13/1983 | 6-4 | 225 | R | R | - | | Blue Mountain (Ore.) Community College |
| 36 | 1065 | June-Reg | Andy Mudd | | OF | 18 | 3/29/1985 | 6-3 | 180 | L | R | - | | S.C. (S.C.) |
| 37 | 1095 | June-Reg | Daniel Brown | | P | 18 | 12/8/1984 | 6-3 | 200 | L | L | - | | Bakersfield Junior College |
| 38 | 1125** | June-Reg | Robert Felmy | | OF | 19 | 4/29/1984 | 5-11 | 180 | L | L | A+ | | Georgia Perimeter College |
| 39 | 1155 | June-Reg | Peter Wiggins | | P | 18 | 11/13/1984 | 6-0 | 180 | R | R | College | | Patterson High School (Patterson,LA) |
| 40 | 1185** | June-Reg | Christian Romple | | C | 18 | 11/12/1984 | 6-3 | 195 | R | R | - | | West Valley High School (Yakima,WA) |
| 41 | 1215 | June-Reg | Chandler Miller | | P | 18 | 3/20/1985 | 6-5 | 190 | R | R | College | | Young Harris College |
| 42 | 1244** | June-Reg | Tony Snow | | P | 19 | 1/20/1984 | 6-4 | 210 | R | R | A- | | Edmonds Community College |
| 43 | 1273** | June-Reg | Lance Scoggins | | P | 18 | 1/19/1985 | 6-1 | 165 | L | L | College | | Bolton High School (Arlington,TN) |
| 44 | 1301 | June-Reg | Troy Harrington | | P | 18 | 12/11/1984 | 6-4 | 180 | R | R | - | | Palmdale High School (Palmdale,CA) |
| 45 | 1329 | June-Reg | Domingo Reyes | | P | 18 | 11/23/1984 | 6-5 | 185 | L | L | - | | Brito Private High School (Miami,FL) |
| 46 | 1356 | June-Reg | Cody Lovejoy | | C | 17 | 7/7/1985 | 6-5 | 220 | R | R | - | | Cypress High School (Cypress,CA) |
| 47 | 1383 | June-Reg | Bryan Henry | | P | 18 | 2/15/1985 | 6-3 | 185 | R | R | A | | Florida High School (Tallahassee,FL) |
| 48 | 1410 | June-Reg | Antonio Westfield | | OF | 18 | 10/10/1984 | 6-0 | 185 | R | R | Rookie | | Cleveland High School (Cleveland,TN) |
| 49 | 1436 | June-Reg | Raul Torres | | P | 18 | 3/15/1985 | 6-2 | 165 | R | R | - | | |
| 50 | 1462** | June-Reg | Rhyne Hughes | | 1B | 19 | 9/9/1983 | 6-2 | 175 | L | L | AA | | Pearl River Community College |
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