| 2 | 70 | June-Reg | Eddy Martinez-Estevez | OF | 20 | 6-2 | 215 | R | R | AA | | Florida State University | $537,500 |
| 3 | 100 | June-Reg | John Bowker | OF | 20 | 6-2 | 190 | L | L | MLB | 2008-2009 | Long Beach State University | $405,000 |
| 4 | 130 | June-Reg | Clay Timpner | OF | 21 | 6-2 | 197 | L | L | MLB | 2008-2008 | University of Central Florida | $235,000 |
| 5 | 160 | June-Reg | Garrett Broshuis | P | 22 | 6-2 | 188 | R | R | AAA | | University of Missouri | $160,000 |
| 6 | 190 | June-Reg | Justin Hedrick | P | 22 | 6-3 | 225 | R | R | AA | | Northeastern University | $45,000 |
| 7 | 220 | June-Reg | Will Thompson | 1B | 21 | 6-1 | 180 | L | L | AAA | | Santa Clara University | $90,000 |
| 8 | 250** | June-Reg | Omar Aguilar | P | 19 | 6-1 | 190 | L | R | AA | | Merced College | |
| 9 | 280** | June-Reg | Jamie Arneson | P | 18 | 6-5 | 195 | L | L | A | | Liberty (Bakersfield,CA) | |
| 10 | 310 | June-Reg | John Grogan | P | | 6-4 | 220 | L | L | A+ | | Oklahoma State University | $50,000 |
| 11 | 340 | June-Reg | Darren Sack | P | 21 | 6-4 | 190 | R | R | AA | | Sonoma State University | |
| 12 | 370 | June-Reg | Kevin Frandsen | 2B | 22 | 6-0 | 175 | R | R | MLB | 2006-2009 | San Jose State University | |
| 13 | 400 | June-Reg | Thomas Martin | P | 22 | 6-5 | 240 | L | L | College | | University of Richmond | |
| 14 | 430 | June-Reg | Geno Espineli | P | 21 | 6-4 | 195 | L | L | MLB | 2008-2008 | Texas Christian University | |
| 15 | 460 | June-Reg | Jeff Palumbo | SS | 22 | 5-9 | 165 | B | R | A- | | George Mason University | |
| 16 | 490 | June-Reg | Manny Cividanes | OF | 19 | 6-1 | 175 | L | L | Rookie | | Broward College | |
| 17 | 520 | June-Reg | Jordan Thomson | P | 22 | 6-2 | 205 | R | R | Ind | | Northeastern University | |
| 18 | 550 | June-Reg | Jeremiah Luster | SS | 17 | 5-10 | 175 | R | R | AAA | | Oceanside (Oceanside,CA) | |
| 19 | 580 | June-Reg | Nathan Pendley | P | 22 | 6-4 | 220 | L | L | A+ | | Oregon State University | |
| 20 | 610 | June-Reg | Rickey Putman | P | 21 | 6-3 | 220 | R | R | A- | | University of Houston | |
| 21 | 640 | June-Reg | Simon Klink | 3B | 22 | 6-1 | 215 | B | R | AA | | Purdue University | |
| 22 | 670 | June-Reg | Doug Mackay | P | 21 | 6-1 | 205 | R | R | A | | University of Utah | |
| 23 | 700 | June-Reg | Brad Groth | SS | 21 | | 185 | R | R | A- | | Elmhurst College | |
| 24 | 730 | June-Reg | Matt Raguse | P | 21 | 6-2 | 195 | R | R | A- | | Miami University | |
| 25 | 760 | June-Reg | John Acha | 3B | 23 | 6-0 | 200 | R | R | A- | | Sacramento State | |
| 26 | 790 | June-Reg | Trevor Wohlgemuth | P | 22 | 6-3 | 230 | R | R | A- | | Northern Illinois University | |
| 27 | 820 | June-Reg | Jonathan Sanchez | P | 21 | 6-2 | 165 | L | L | MLB | 2006-2009 | Ohio Dominican University | |
| 28 | 850 | June-Reg | Charlie Babineaux | OF | 23 | 6-4 | 215 | R | R | A- | | University of Mississippi | |
| 29 | 880 | June-Reg | Ryan Shaver | P | 19 | 6-5 | 175 | R | R | A+ | | Lower Columbia Community College | |
| 30 | 910 | June-Reg | Kevin Jenson | P | 23 | 6-4 | 215 | R | R | A- | | Loyola Marymount University | |
| 31 | 940 | June-Reg | Kyle Haines | SS | 21 | 6-1 | 170 | B | R | AA | | Eastern Illinois University | |
| 32 | 970 | June-Reg | Morgan Brinson | P | 17 | 6-3 | 181 | R | R | A- | | Walnut Grove (Langley,BC) | |
| 33 | 1000 | June-Reg | Judson Richards | 1B | 23 | 6-2 | 195 | L | L | Ind | | Point Loma Nazarene University | |
| 34 | 1030 | June-Reg | Jacob Coash | P | 20 | 6-4 | 220 | L | L | - | | College of the Canyons | |
| 35 | 1060 | June-Reg | Tim Grant | P | | | | | | College | | Dartmouth College | |
| 36 | 1090 | June-Reg | Buster Lussier | P | | | | | | - | | Diman Regional Vocational (Fall River,MA) | |
| 37 | 1120** | June-Reg | Erik Meyer | P | 21 | | 0 | | | - | | University of Eastern Washington | |
| 38 | 1150 | June-Reg | Tyson Brummett | P | 19 | 6-2 | 180 | R | R | AAA | | Central Arizona College | |
| 39 | 1180** | June-Reg | Brad Schwarzenbach | P | 18 | | | | | - | | St. John Bosco (Bellflower,CA) | |
| 40 | 1210 | June-Reg | Mac Nelson | C | | | | | | Ind | | Timpanogos (Orem,UT) | |
| 41 | 1239 | June-Reg | Chase Smith | P | | | | | | A- | | University of Central Oklahoma | |
| 42 | 1268 | June-Reg | Ryan Addition | P | | | | | | Ind | | Western (Davie,FL) | |
| 43 | 1297** | June-Reg | Jack Spradlin | P | 19 | 6-2 | 170 | R | L | AAA | | Southwestern Community College | |
| 44 | 1326 | June-Reg | Tom Gornati | P | 22 | 6-1 | 205 | R | R | A+ | | University of Pittsburgh | |
| 45 | 1355 | June-Reg | Kris Gibson | 1B | | | | | | Ind | | San Francisco State University | |
| 46 | 1384 | June-Reg | David Quinowski | P | 18 | 5-10 | 170 | L | L | A+ | | Redlands (Redlands,CA) | |
| 47 | 1413 | June-Reg | Matt Minor | P | 21 | 6-0 | 180 | R | R | A | | UNLV | |
| 48 | 1441 | June-Reg | Benny Cepeda | P | 21 | 6-2 | 175 | R | R | A- | | Ohio Dominican University | |
| 49 | 1469 | June-Reg | Michael Santoro | OF | 21 | 6-3 | 225 | R | R | A- | | Northern Illinois University | |
| 50 | 1497 | June-Reg | Garrett Lingle | 2B | 17 | | | | | - | | Mission Bay (San Diego,CA) | |