| 1 | 22 | June-Reg | Jayson Werth | C | 18 | 6-5 | 210 | R | R | MLB | 2002-2009 | Glenwood (Chatham,IL) | $885,000 |
| 1 | 26 | June-Reg | Darnell McDonald | OF | 18 | 5-11 | 201 | R | R | MLB | 2004-2009 | Cherry Creek (Englewood,CO) | $1,900,000 |
| 1 | 36 | June-Reg | Ntema Ndungidi | OF | 18 | 6-2 | 199 | L | R | AA | | Edouard Montpetit (Montreal,QC) | $500,000 |
| 2 | 73 | June-Reg | Sean Douglass | P | 18 | 6-6 | 200 | R | R | MLB | 2001-2005 | Antelope Valley (Lancaster,CA) | |
| 3 | 105 | June-Reg | Matt Riley | P | 17 | 6-1 | 201 | L | L | MLB | 1999-2005 | Liberty (Brentwood,CA) | |
| 4 | 135 | June-Reg | Shannon Carter | OF | 18 | 6-0 | 180 | L | L | AAA | | El Reno (El Reno,OK) | |
| 5 | 165 | June-Reg | Rick Bauer | P | 20 | 6-6 | 212 | R | R | MLB | 2001-2008 | Treasure Valley Community College | |
| 6 | 195 | June-Reg | Caleb Balbuena | P | 20 | 6-7 | 240 | R | R | A+ | | Cuesta College | |
| 7 | 225 | June-Reg | Ricky Casteel | P | 19 | 6-2 | 190 | R | R | A | | Northeast Texas Community College | |
| 8 | 255 | June-Reg | Jay Spurgeon | P | 20 | 6-6 | 211 | R | R | MLB | 2000-2000 | University of Hawaii | |
| 9 | 285 | June-Reg | Logan Cuelar | P | | | | | | - | | Wharton County Junior College | |
| 10 | 315 | June-Reg | David Zwirchitz | P | 18 | 6-2 | 190 | R | R | Ind | | Appleton East (Appleton,WI) | |
| 11 | 345 | June-Reg | Jerry Hairston | SS | 21 | 5-10 | 173 | R | R | MLB | 1998-2009 | Southern Illinois University | |
| 12 | 375 | June-Reg | Darren Murphy | p | 20 | 6-3 | 170 | L | L | A | | Grossmont College | |
| 13 | 405 | June-Reg | Mack Haman | OF | 21 | 6-4 | 205 | R | R | A | | Coastal Carolina University | |
| 14 | 435 | June-Reg | Sean Jones | p | 19 | 6-8 | 215 | R | R | A+ | | Barton (Hamilton,ON) | |
| 15 | 465 | June-Reg | Jordan Romero | p | 20 | 6-1 | 170 | R | R | A+ | | De Anza College | |
| 16 | 495 | June-Reg | Cliff Wilson | 3B | 20 | 6-2 | 198 | L | R | Rookie | | Spartanburg Methodist College | |
| 17 | 525 | June-Reg | Chris Thogersen | p | 18 | 6-5 | 210 | R | R | College | | Newbury Park (Newbury Park,CA) | |
| 18 | 555** | June-Reg | Lance Surridge | p | 20 | 6-4 | 200 | L | R | A+ | | University of North Carolina-Greensboro | |
| 19 | 585 | June-Reg | Jason Ryba | p | 18 | 6-3 | 190 | R | R | Rookie | | Cuyahoga Heights (Cuyahoga Heights,OH) | |
| 20 | 615** | June-Reg | Joe Borchard | 1B | 18 | 6-5 | 220 | B | R | MLB | 2002-2007 | | |
| 21 | 645 | June-Reg | Antoine Ide | OF | 18 | 6-0 | 170 | R | R | A | | Madison (Portland,OR) | |
| 22 | 675 | June-Reg | Juan Pacheco | SS | 20 | 6-0 | 170 | R | R | A | | Rutgers University | |
| 23 | 705 | June-Reg | Tod Lee | C | | | | | | - | | Georgia Southern University | |
| 24 | 735 | June-Reg | Jason Taylor | OF | | | | | | - | | Ryan (Denton,TX) | |
| 25 | 765** | June-Reg | Roy Wells | p | 18 | 6-3 | 195 | B | R | A | | Perry Central (Hazard,KY) | |
| 26 | 795 | June-Reg | D.J. Carrasco | p | 20 | 6-1 | 215 | R | R | MLB | 2003-2009 | Pima Community College | |
| 27 | 825 | June-Reg | Brian Harper | OF | | | | | | - | | Hershey (Hershey,PA) | |
| 28 | 855 | June-Reg | Erick Eigenhuis | p-1B | 18 | 6-5 | 190 | R | R | College | | Central Valley (Veradale,WA) | |
| 29 | 885 | June-Reg | Anthony Reed | p | 18 | 6-2 | 210 | R | R | Rookie | | Eisenhower (Lawton,OK) | |
| 30 | 915** | June-Reg | Brian Schmitt | 1B | 18 | 6-2 | 200 | L | L | A | | Monterey (Lubbock,TX) | |
| 31 | 945** | June-Reg | Terry Byron | 3B | 18 | 6-0 | 220 | R | R | A+ | | St. Joseph (St. Croix,VI) | |
| 32 | 975** | June-Reg | Gavin Wright | OF | 18 | 6-2 | 175 | R | R | AA | | Lufkin (Lufkin,TX) | |
| 33 | 1005** | June-Reg | Andy Beal | p | 18 | 6-2 | 190 | L | L | AAA | | Reidland (Paducah,KY) | |
| 34 | 1035 | June-Reg | Matt Schwager | p | 19 | 6-6 | 222 | R | R | A+ | | Indian Hills Community College-Centerville | |
| 35 | 1065 | June-Reg | Austin Bilke | 3B | 17 | 6-2 | 220 | R | R | A+ | | Beaver Dam (Beaver Dam,WI) | |
| 36 | 1095 | June-Reg | Juan Bonilla | Of | 19 | 6-1 | 200 | R | R | A | | Crestview (Crestview,FL) | |
| 37 | 1125** | June-Reg | Rod Perry | Of | 18 | 5-10 | 195 | R | R | A+ | | Mater Dei (Santa Ana,CA) | |
| 38 | 1155 | June-Reg | Sam Emerick | p | 19 | 6-4 | 196 | R | R | - | | Lincoln Land Community College | |
| 39 | 1185 | June-Reg | Bill Duplissea | C | 19 | 6-0 | 200 | R | R | AAA | | College of San Mateo | |
| 40 | 1215 | June-Reg | Tommy Martin | SS | 21 | 5-10 | 175 | R | R | Rookie | | Hillsdale College | |
| 41 | 1242 | June-Reg | Shawn Curtis | p | 19 | 6-2 | 190 | R | R | Rookie | | Lexington Christian (Lexington,KY) | |