| 1 | 3 | June-Reg | Chris Gruler | P | 18 | 6-3 | 210 | R | R | A | | Liberty (Brentwood,CA) | |
| 1 | 40 | June-Reg | Mark Schramek | P | 22 | 6-3 | 230 | L | R | AA | | University of Texas | |
| 2 | 44 | June-Reg | Joey Votto | 3B | 18 | 6-3 | 200 | L | R | MLB | 2007-2009 | Richview Collegiate Institute (Toronto,ON) | $600,000 |
| 3 | 75 | June-Reg | Kyle Edens | P | 22 | 5-10 | 190 | R | R | AA | | Baylor University | |
| 4 | 105 | June-Reg | Camilo Vazquez | P | 18 | 6-0 | 180 | L | L | AAA | | Hialeah (Hialeah,FL) | |
| 5 | 135 | June-Reg | Kevin Howard | 3B | 21 | 6-2 | 180 | L | R | AAA | | University of Miami | |
| 6 | 165 | June-Reg | Walter Olmstead | 1B | 21 | 6-6 | 230 | B | R | A+ | | Texas Christian University | |
| 7 | 195 | June-Reg | Corey Wachman | P | 21 | 6-0 | 180 | R | R | Rookie | | Valdosta State University | |
| 8 | 225 | June-Reg | O.J. King | P | 22 | 6-3 | 215 | R | R | A | | Northwestern State University | |
| 9 | 255 | June-Reg | Steve Booth | C | 22 | 6-1 | 190 | R | R | A | | University of San Francisco | |
| 10 | 285 | June-Reg | Frankie Keller | P | 22 | 6-2 | 220 | L | L | A | | Abilene Christian University | |
| 11 | 315 | June-Reg | Mike Bassett | OF | 22 | 6-2 | 205 | L | L | A | | George Washington University | |
| 12 | 345 | June-Reg | Don Gemmell | P | 22 | 6-1 | 210 | R | R | A | | San Jose State University | |
| 13 | 375** | June-Reg | Enrique Cruz | SS | 20 | 5-10 | 185 | B | R | AA | | Rice University | |
| 14 | 405 | June-Reg | Patrick Curran | P | | | 0 | | | Rookie | | Fort Hays State University | |
| 15 | 435 | June-Reg | Christopher Kamis | P | 20 | 6-5 | 180 | R | R | - | | Elgin Community College | |
| 16 | 465 | June-Reg | Jon George | P | 17 | 6-3 | 210 | R | R | AA | | Camden Catholic (Pennsauken,NJ) | |
| 17 | 495 | June-Reg | Ben Lavender | C | | | 0 | | | - | | Pelham (Pelham,AL) | |
| 18 | 525** | June-Reg | Zach McCormack | P | 20 | 6-2 | 195 | L | L | A+ | | Sacramento City College | |
| 19 | 555 | June-Reg | Chris Denorfia | OF | 21 | 6-1 | 180 | R | R | MLB | 2005-2009 | Wheaton College | |
| 20 | 585 | June-Reg | Douglas Coon | P | | | 0 | | | - | | Silverado (Las Vegas,NV) | |
| 21 | 615 | June-Reg | Mike Causey | P | 20 | 6-5 | 225 | R | R | Ind | | Moorpark College | |
| 22 | 645** | June-Reg | Matt Luca | | | | | | | College | | Ball (Galveston,TX) | |
| 23 | 675** | June-Reg | Nick Markakis | | 18 | 6-2 | 195 | L | L | MLB | 2006-2009 | Young Harris College | $0 |
| 24 | 705 | June-Reg | Jarrod Schmidt | OF | 21 | 6-2 | 200 | R | R | A | | Clemson University | |
| 25 | 735 | June-Reg | Robert Mosby | 1B-OF | 20 | 6-3 | 240 | R | R | A | | Northeastern Oklahoma A&M College | |
| 26 | 765 | June-Reg | Chris Dunn | | | | | | | Ind | | Chaparral (Parker,CO) | |
| 27 | 795** | June-Reg | Juan Velazquez | P | 18 | 6-4 | 190 | R | R | A | | Montgomery (San Diego,CA) | |
| 28 | 825 | June-Reg | Jay Tust | 2B | | | 0 | | | - | | Stadium (Tacoma,WA) | |
| 29 | 855 | June-Reg | Brad Correll | 3B | 21 | 6-2 | 200 | R | R | AA | | Limestone College | |
| 30 | 885 | June-Reg | Justin Knoff | P | 21 | 6-4 | 205 | R | R | AA | | Siena College | |
| 31 | 915 | June-Reg | Mayque Quintero | P | 24 | 6-2 | 220 | R | R | A+ | | | |
| 32 | 945 | June-Reg | Gerald Smith | RF | | | 0 | | | - | | Jefferson (Tampa,FL) | |
| 33 | 975** | June-Reg | Bart Braun | P | 20 | 5-10 | 175 | L | L | Ind | | Diablo Valley College | |
| 34 | 1005** | June-Reg | Cody McAllister | P | 18 | 6-2 | 190 | R | R | A+ | | Snohomish (Snohomish,WA) | |
| 35 | 1035** | June-Reg | Stantrel Smith | CF | 18 | 6-4 | 215 | R | R | A | | Towers (Decatur,GA) | |
| 36 | 1065 | June-Reg | Matthew Krimmel | 3B | 21 | 6-4 | 200 | L | R | Rookie | | George Washington University | |
| 37 | 1095 | June-Reg | Shawn Aichele | P | 19 | 6-1 | 208 | R | R | Rookie | | Western Hills (Cincinnati,OH) | |
| 38 | 1125 | June-Reg | Hardy Hutto | P | | | 0 | | | College | | Garden City Community College | |
| 39 | 1155 | June-Reg | Calvin Medlock | P | 19 | 5-10 | 195 | R | R | AAA | | Westbury (Houston,TX) | |
| 40 | 1185 | June-Reg | Chris Bell | P | 21 | 6-3 | 200 | R | R | Rookie | | Miami-Dade College | |
| 41 | 1215** | June-Reg | Marcus Townsend | OF | 20 | 6-4 | 210 | R | R | Rookie | | University of Texas | |
| 42 | 1245 | June-Reg | Danny Kelly | | 17 | 6-2 | 180 | R | R | College | | Durango (Las Vegas,NV) | |
| 43 | 1275 | June-Reg | Derek Hawk | P | 19 | 6-6 | 225 | L | R | A | | Mendocino College | |
| 44 | 1303 | June-Reg | Jason Baca | P | 18 | 6-3 | 217 | R | R | Ind | | Sweeny (Sweeny,TX) | |
| 45 | 1331 | June-Reg | Dennis Leduc | | 21 | 6-4 | 205 | R | R | Ind | | Cuesta College | |
| 46 | 1358 | June-Reg | Troy Cairns | SS | 21 | 6-0 | 160 | R | R | AAA | | University of New Mexico | |
| 47 | 1384 | June-Reg | Michael Bryant | P | 18 | 6-6 | 205 | R | R | A+ | | Rayburn (Pasadena,TX) | |
| 48 | 1410 | June-Reg | Travis Wong | 1B | 20 | 6-6 | 230 | R | R | A+ | | Texas A&M University | |
| 49 | 1436 | June-Reg | Billy Dennis | OF | 21 | 6-2 | 180 | L | L | Rookie | | University of the Incarnate Word | |
| 50 | 1460** | June-Reg | Ben Himes | OF | 21 | 6-4 | 210 | L | R | A+ | | Texas A&M University | |