| Overall Pick |
Round number |
Pick number |
Team | Player Selected | Pos |
| 1 | 1 | 1 | Mokena | Bryce Harper (prospect) |
OF |
| 2 | 1 | 2 | Chappaqua (from Beantown) |
Jaime Garcia | P |
| 3 | 1 | 3 | Buffalo | Colby Lewis | P |
| 4 | 1 | 4 | Arundel | Joaquin Benoit | P |
| 5 | 1 | 5 | Pike City | Travis Wood | P |
| 6 | 1 | 6 | Jonesboro | Mitch Talbot | P |
| 7 | 1 | 7 | Freeport | Mike Moustakas (prospect) |
3B |
| 8 | 1 | 8 | Glacier Point | Wilson Valdez | SS |
| 9 | 1 | 9 | Chappaqua | Danny Valencia |
3B |
| 10 | 1 | 10 | Green Bay | Chris Johnson | 3B |
| 11 | 1 | 11 | Greensboro | Mike Trout (prospect) |
OF |
| 12 | 1 | 12 | Long Island | Jonathon Niese | P |
| 13 | 1 | 13 | Glacier Point (from Baton Rouge) |
Jonny Venters | P |
| 14 | 1 | 14 | San Diego | Mitch Moreland | 1B |
| 15 | 1 | 15 | Tidewater | Julio Teheran (prospect) |
P |
| 16 | 1 | 16 | Chappaqua (from East Coast) |
Mike Leake | P |
| 17 | 1 | 17 | Turtle Beach (from Coney Island) |
Chris Sale | P |
| 18 | 1 | 18 | Turtle Beach | Jacob Turner (prospect) |
P |
| 19 | 1 | 19 | Westchester | Jonathan Lucroy | C |
| 20 | 1 | 20 | Gulf Breeze | Brennan Boesch | OF |
| 21 | 1 | 21 | Stamford | John Jaso | C |
| 22 | 1 | 22 | Glab | Craig Kimbrel | P |
| 23 | 1 | 23 | Tampa | Bruce Chen | P |
| 24 | 1 | 24 | Mokena (from Louisiana) |
Humberto Quintero | C |
| Overall Pick |
Round number |
Pick number |
Team | Player Selected | Pos |
| 25 | 2 | 1 | Mokena | Brandon Belt (prospect) |
1B |
| 26 | 2 | 2 | Beantown | Kevin Correia | P |
| 27 | 2 | 3 | Buffalo | Roger Bernadina | OF |
| 28 | 2 | 4 | Arundel | Wilson Betemit |
3B |
| 29 | 2 | 5 | Pike City | Alex Sanabila | P |
| 30 | 2 | 6 | Jonesboro | Clay Hensley | P |
| 31 | 2 | 7 | Turtle Beach (from Freeport) |
Alexi Ogando | P |
| 32 | 2 | 8 | Glacier Point | Matt Belisle | P |
| 33 | 2 | 9 | Chappaqua | Phil Coke | P |
| 34 | 2 | 10 | Green Bay | John Axford | P |
| 35 | 2 | 11 | Greensboro | Wil Myers (prospect) |
C |
| 36 | 2 | 12 | Long Island | Kyle Gibson (prospect) |
P |
| 37 | 2 | 13 | Baton Rouge | Rodrigo Lopez | P |
| 38 | 2 | 14 | San Diego | Corey Luebke | P |
| 39 | 2 | 15 | Tidewater | Michael Pineda (prospect) |
P |
| 40 | 2 | 16 | East Coast | Wilson Ramos | C |
| 41 | 2 | 17 | Coney Island | Joel Peralta | P |
| 42 | 2 | 18 | Greensboro (from Turtle Beach) |
Martin Perez (prospect) |
P |
| 43 | 2 | 19 | Stamford (from Westchester) |
Santiago Casilla | P |
| 44 | 2 | 20 | Pike City (from Gulf Breeze) |
Chris Archer (prospect) |
P |
| 45 | 2 | 21 | Stamford | Kenley Jansen | P |
| 46 | 2 | 22 | Glab | Danny Espinosa | 2B |
| 47 | 2 | 23 | Arundel (from Tampa) |
Brent Morel | 3B |
| 48 | 2 | 24 | East Coast (from Glacier Point through Louisiana) |
Andrew Oliver | P |
| Overall Pick |
Round number |
Pick number |
Player Selected | Pos | |
| 49 | 3 | 1 | Coney Island (from Mokena) |
Ryan Westmoreland (prospect) |
OF |
| 50 | 3 | 2 | Arundel (from Beantown) |
Jake McGee | P |
| 51 | 3 | 3 | Buffalo | Josh Wilson | SS |
| 52 | 3 | 4 | Arundel | Manny Machado (prospect) |
SS |
| 53 | 3 | 5 | Pike City | Anthony Rendon (prospect) |
3B |
| 54 | 3 | 6 | Jonesboro | Brad Ziegler | P |
| 55 | 3 | 7 | East Coast (from Freeport) |
Jason Kipnis (prospect) |
2B |
| 56 | 3 | 8 | Glacier Point | Drew Butera | C |
| 57 | 3 | 9 | Beantown (from Chappaqua) |
Jon Jay | OF |
| 58 | 3 | 10 | Green Bay | Jonathan Herrera | 2B |
| 59 | 3 | 11 | Greensboro | Lorenzo Cain | OF |
| 60 | 3 | 12 | Long Island | Peter Bourjos |
OF |
| 61 | 3 | 13 | Baton Rouge | Darnell McDonald | OF |
| 62 | 3 | 14 | San Diego | Barry Enright | P |
| 63 | 3 | 15 | Tidewater | David Pauley | P |
| 64 | 3 | 16 | East Coast | Tyler Chatwood (prospect) |
P |
| 65 | 3 | 17 | Long Island (from Coney Island) |
Matt Joyce | OF |
| 66 | 3 | 18 | Turtle Beach | Ryan Kalish | OF |
| 67 | 3 | 19 | Westchester | Ryan Webb | P |
| 68 | 3 | 20 | Gulf Breeze | Tsuyoshi Nishioka (prospect) |
SS |
| 69 | 3 | 21 | Stamford | Pat Burrell | OF |
| 70 | 3 | 22 | Glab | Jordan Lyles (prospect) |
P |
| 71 | 3 | 23 | Tampa | Javier Lopez | P |
| 72 | 3 | 24 | Louisiana | Mike Montgomery (prospect) |
P |
| Overall Pick |
Round number |
Pick number |
Team | Player Selected | Pos |
| 73 | 4 | 1 | Mokena | Andy LaRoche | 3B |
| 74 | 4 | 2 | Beantown | Josh Tomlin | P |
| 75 | 4 | 3 | Buffalo | Kevin Gregg | P |
| 76 | 4 | 4 | Arundel | Sergio Santos | P |
| 77 | 4 | 5 | Greensboro (from Pike City) |
Chris Capuano | P |
| 78 | 4 | 6 | Greensboro (from Jonesboro) |
Mike Fontenot | 2B |
| 79 | 4 | 7 | Freeport | Chris Heisey | OF |
| 80 | 4 | 8 | Glacier Point | Rafael Perez | P |
| 81 | 4 | 9 | Glab (from Chappaqua) |
Jarrod Parker (prospect) |
P |
| 82 | 4 | 10 | Green Bay | Angel Sanchez | SS |
| 83 | 4 | 11 | Greensboro | Casey Janssen | P |
| 84 | 4 | 12 | Long Island | Alex White (prospect) |
P |
| 85 | 4 | 13 | Baton Rouge | Chris Denorfia | OF |
| 86 | 4 | 14 | San Diego | Craig Tatum | C |
| 87 | 4 | 15 | Tidewater | Casey Coleman | P |
| 88 | 4 | 16 | East Coast | Dillon Gee | P |
| 89 | 4 | 17 | Coney Island (from Long Island through Coney Island) |
Wilton Lopez | P |
| 90 | 4 | 18 | Turtle Beach | Brandon Beachy | P |
| 91 | 4 | 19 | Westchester | Miguel Cairo | 3B |
| 92 | 4 | 20 | Gulf Breeze | Kameron Loe | P |
| 93 | 4 | 21 | Stamford | Jason Berken | P |
| 94 | 4 | 22 | Glab | Devon Mesoraco (prospect) |
C |
| 95 | 4 | 23 | Tampa | Kila Ka'aihue |
1B |
| 96 | 4 | 24 | Louisiana | Mark Rogers | P |
| Overall Pick |
Round number |
Pick number |
Team | Player Selected | Pos |
| 97 | 5 | 1 | Mokena | Koji Uehara | P |
| 98 | 5 | 2 | Beantown | Austin Kearns | OF |
| 99 | 5 | 3 | Buffalo | Luis Valbuena | 2B |
| 100 | 5 | 4 | Arundel | Zach Braddock | P |
| 101 | 5 | 5 | Pike City | Yamaico Navarro | SS |
| 102 | 5 | 6 | Greensboro (from Jonesboro) |
Jerry Blevins | P |
| 103 | 5 | 7 | Freeport | Nick Franklin (prospect) |
SS |
| 104 | 5 | 8 | Glacier Point | Ernesto Frieri | P |
| 105 | 5 | 9 | Chappaqua | Ruben Tejada | 2B |
| 106 | 5 | 10 | Green Bay | Elmer Dessens | P |
| 107 | 5 | 11 | Greensboro | Eduardo Nunez | 3B |
| 108 | 5 | 12 | Long Island | Will Rhymes | 2B |
| 109 | 5 | 13 | Baton Rouge | Anthony Ranaudo (prospect) |
P |
| 110 | 5 | 14 | San Diego | Anthony Rizzo (prospect) |
1B |
| 111 | 5 | 15 | Tidewater | Ivan Nova | P |
| 112 | 5 | 16 | Arundel (from East Coast) |
Jim Edmonds | OF |
| 113 | 5 | 17 | Coney Island | Jemile Weeks (prospect) |
2B |
| 114 | 5 | 18 | Turtle Beach | Casper Wells | OF |
| 115 | 5 | 19 | Stamford (from Westchester) |
John Lamb (prospect) |
P |
| 116 | 5 | 20 | Gulf Breeze | Boone Logan | P |
| 117 | 5 | 21 | Stamford | Jose Contreras | P |
| 118 | 5 | 22 | Glab | Doug Slaten | P |
| 119 | 5 | 23 | Tampa | Scott Sizemore | 2B |
| 120 | 5 | 24 | Louisiana | Jarrod Saltalamacchia | C |
| Overall Pick |
Round number |
Pick number |
Team | Player Selected | Pos |
| 121 | 6 | 1 | Mokena | Matt Treanor | C |
| 122 | 6 | 2 | Beantown | Sergio Mitre | P |
| 123 | 6 | 3 | Freeport (from Buffalo) |
Brooks Conrad | 3B |
| 124 | 6 | 4 | Arundel | Osvaldo Martinez | SS |
| 125 | 6 | 5 | Pike City | Allen Craig | OF |
| 126 | 6 | 6 | Jonesboro | Don Kelly | OF |
| 127 | 6 | 7 | Freeport | Brian Schneider | C |
| 128 | 6 | 8 | Glacier Point | Jason Repko | OF |
| 129 | 6 | 9 | Chappaqua | Manny Acosta | P |
| 130 | 6 | 10 | Green Bay | Willie Bloomquist | OF |
| 131 | 6 | 11 | Greensboro | Yunesky Maya | P |
| 132 | 6 | 12 | Chappaqua (from Beantown through Long Island) |
Max Ramirez | C |
| 133 | 6 | 13 | Baton Rouge | Fernando Salas | P |
| 134 | 6 | 14 | San Diego | Carlos Monasterios | P |
| 135 | 6 | 15 | Tidewater | Josh Donaldson | C |
| 136 | 6 | 16 | East Coast (from Freeport through East Coast) |
Rich Thompson | P |
| 137 | 6 | 17 | Coney Island | Tyson Ross | P |
| 138 | 6 | 18 | Turtle Beach | Danny Worth | SS |
| 139 | 6 | 19 | Westchester | Dusty Hughes | P |
| 140 | 6 | 20 | Gulf Breeze | Will Ohman | P |
| 141 | 6 | 21 | Westchester (from Stamford) |
Randall Delgado (prospect) |
P |
| 142 | 6 | 22 | Chappaqua (from Glab) |
Jameson Taillon (prospect) |
P |
| 143 | 6 | 23 | Tampa | Andres Blanco | 2B |
| 144 | 6 | 24 | Louisiana | Mark DeRosa |
OF |
| Overall Pick |
Round number |
Pick number |
Team | Player Selected | Pos |
| 145 | 7 | 1 | Turtle Beach (from Mokena) |
Mark Trumbo | 1B |
| 146 | 7 | 2 | Pike City (from Beantown) |
David Herndon | P |
| 147 | 7 | 3 | Buffalo | Brad Thomas | P |
| 148 | 7 | 4 | Turtle Beach (from Arundel) |
Jerry Sands (prospect) |
1B |
| 149 | 7 | 5 | Gulf Breeze (from Pike City) |
Scott Cousins | OF |
| 150 | 7 | 6 | Jonesboro | Aaron Miles | 2B |
| 151 | 7 | 7 | East Coast (from Freeport) |
Chris Ray | P |
| 152 | 7 | 8 | Glacier Point | David Purcey | P |
| 153 | 7 | 9 | Greensboro (from Chappaqua) |
Lucas May | C |
| 154 | 7 | 10 | Green Bay | Shelley Duncan | OF |
| 155 | 7 | 11 | Greensboro | Michael Kirkman | P |
| 156 | 7 | 12 | Long Island | Jason Marquis | P |
| 157 | 7 | 13 | Mokena (from Baton Rouge) |
Logan Ondrusek | P |
| 158 | 7 | 14 | San Diego | Leslie Anderson (prospect) |
1B |
| 159 | 7 | 15 | Tidewater | Octavio Dotel | P |
| 160 | 7 | 16 | Chappaqua (from East Coast) |
Willin Rosario (prospect) |
C |
| 161 | 7 | 17 | Beantown (from Coney Island) |
Rusty Ryal | OF |
| 162 | 7 | 18 | Turtle Beach | Casey Crosby (prospect) |
P |
| 163 | 7 | 19 | Westchester | Zack Cozart (prospect) |
SS |
| 164 | 7 | 20 | Gulf Breeze | Joe Beimel | P |
| 165 | 7 | 21 | Stamford | Nate McLouth | OF |
| 166 | 7 | 22 | Glab | Koyie Hill | C |
| 167 | 7 | 23 | Tampa | Jamey Wright | P |
| 168 | 7 | 24 | Coney Island (from Louisiana) |
John Ely | P |
| Overall Pick |
Round number |
Pick number |
Team | Player Selected | Pos |
| 169 | 8 | 1 | Mokena | Andy Marte | 3B |
| 170 | 8 | 2 | Chappaqua (from Beantown) |
Chien Mien Wang (uncarded) |
P |
| 171 | 8 | 3 | Turtle Beach (from Buffalo) |
A.J. Ellis | C |
| 172 | 8 | 4 | Arundel | Jeremy Jeffress | P |
| 173 | 8 | 5 | Pike City | Justin De Fratus (prospect) |
P |
| 174 | 8 | 6 | Jonesboro | Reed Johnson | OF |
| 175 | 8 | 7 | Freeport | Michael Dunn | P |
| 176 | 8 | 8 | Glacier Point | Robert Andino | 2B |
| 177 | 8 | 9 | Freeport (from Chappaqua) |
Andrew Cashner | P |
| 178 | 8 | 10 | Green Bay | Jeff Mathis | C |
| 179 | 8 | 11 | Greensboro | Charlie Morton | P |
| 180 | 8 | 12 | Coney Island (from Long Island) |
Adrian Cardenas (prospect) |
2B |
| 181 | 8 | 13 | Baton Rouge | Scott Hairston | OF |
| 182 | 8 | 14 | San Diego | Reinier Roibal (prospect) |
P |
| 183 | 8 | 15 | Tidewater | Ryan Rowland-Smith | P |
| 184 | 8 | 16 | Freeport (from East Coast) |
Landon Powell | C |
| 185 | 8 | 17 | Coney Island | Bob Cramer | P |
| 186 | 8 | 18 | Turtle Beach | Shawn Hill | P |
| 187 | 8 | 19 | Westchester | Lucas Duda | OF |
| 188 | 8 | 20 | Gulf Breeze | Jason Varitek | C |
| 189 | 8 | 21 | Stamford | Bobby Wilson | C |
| 190 | 8 | 22 | Glab | EWC claim | |
| 191 | 8 | 23 | Tampa | Eliezer Alfonzo | C |
| 192 | 8 | 24 | Louisiana | Ramiro Pena | 3B |
| Overall Pick |
Round number |
Pick number |
Team | Player Selected | Pos |
| 193 | 9 | 1 | Chappaqua (from Mokena) |
Chris Nelson | 3B |
| 194 | 9 | 2 | Beantown | Matt Reynolds | P |
| 195 | 9 | 3 | Buffalo | Miguel Sano (prospect) |
SS |
| 196 | 9 | 4 | Arundel | Brett Jackson (prospect) |
OF |
| 197 | 9 | 5 | Pike City | Adam Everett | SS |
| 198 | 9 | 6 | Jonesboro | Joaquin Arias | 2B |
| 199 | 9 | 7 | Freeport | Trayvon Robinson (prospect) |
OF |
| 200 | 9 | 8 | Glacier Point | Taylor Jungmann (prospect) |
P |
| 201 | 9 | 9 | Coney Island (from Chappaqua) |
Dustin Moseley | P |
| 202 | 9 | 10 | Green Bay | Carlos Perez (prospect) |
P |
| 203 | 9 | 11 | Greensboro | Felix Doubront | P |
| 204 | 9 | 12 | Long Island | Denny Descalso |
3B |
| 205 | 9 | 13 | Baton Rouge | Matt Albers | P |
| 206 | 9 | 14 | San Diego | Kevin Frandsen | 3B |
| 207 | 9 | 15 | Tidewater | Michael McKenry | C |
| 208 | 9 | 16 | East Coast | Michael Kohn | P |
| 209 | 9 | 17 | Long Island (from Coney Island) |
Lucas Harrell | P |
| 210 | 9 | 18 | Long Island (from Turtle Beach) |
Jonothan Singleton (prospect) |
1B |
| 211 | 9 | 19 | Westchester | Tyler Greene | SS |
| 212 | 9 | 20 | Gulf Breeze | Dan Johnson | 1B |
| 213 | 9 | 21 | Chappaqua (from Stamford) |
Joe Inglett | OF |
| 214 | 9 | 22 | Glab | Jeff Karstens | P |
| 215 | 9 | 23 | Tampa | Hak-Ju Lee (prospect) |
SS |
| 216 | 9 | 24 | Louisiana | Zack Cox (prospect) |
3B |
| Overall Pick |
Round number |
Pick number |
Team | Player Selected | Pos |
| 217 | 10 | 1 | Mokena | Greg Dobbs | 3B |
| 218 | 10 | 2 | Arundel (from Beantown) |
Nick Evans | OF |
| 219 | 10 | 3 | Buffalo | Jose Veras | P |
| 220 | 10 | 4 | Arundel | Jay Gibbons | OF |
| 221 | 10 | 5 | Long Island (from Pike City) |
Dan Cortes | P |
| 222 | 10 | 6 | Jonesboro | Frank Herrmann | P |
| 223 | 10 | 7 | Freeport | Pass | |
| 224 | 10 | 8 | Glacier Point | Cole Green (prospect) |
P |
| 225 | 10 | 9 | Coney Island (from Chappaqua) |
Alex Cora | 2B |
| 226 | 10 | 10 | Green Bay | Bobby Cassevah | P |
| 227 | 10 | 11 | Greensboro | Pass | |
| 228 | 10 | 12 | Turtle Beach (from Long Island) |
Matt Maloney | P |
| 229 | 10 | 13 | Baton Rouge | Kevin Cash | C |
| 230 | 10 | 14 | San Diego | Scott Atchison | P |
| 231 | 10 | 15 | Tidewater | Pass | |
| 232 | 10 | 16 | East Coast | JC Romero | P |
| 233 | 10 | 17 | Coney Island | Jeanmar Gomez | P |
| 234 | 10 | 18 | Turtle Beach | Daniel Nava | OF |
| 235 | 10 | 19 | Westchester | Justin Germano | P |
| 236 | 10 | 20 | Gulf Breeze | LaTroy Hawkins | P |
| 237 | 10 | 21 | Stamford | Reggie Willits | OF |
| 238 | 10 | 22 | Glab | Nate Robertson | P |
| 239 | 10 | 23 | Tampa | Simon Castro (prospect) |
P |
| 240 | 10 | 24 | Louisiana | Justin Maxwell | OF |
| Overall Pick |
Round number |
Pick number |
Team | Player Selected | Pos |
| 241 | 11 | 1 | Mokena | W. Chris Carter | OF |
| 242 | 11 | 2 | Beantown | Dellin Betances (prospect) |
P |
| 243 | 11 | 3 | Buffalo | Arodys Vizcaino (prospect) |
P |
| 244 | 11 | 4 | Arundel | Michael Bowden | P |
| 245 | 11 | 5 | Long Island (from Pike City) |
Chad James (prospect) |
P |
| 246 | 11 | 6 | Jonesboro | Jordan Smith | P |
| 247 | 11 | 7 | Stamford |
Collin Balester | P |
| 248 | 11 | 8 | Glacier Point | Jeff Schaus (prospect) |
OF |
| 249 | 11 | 9 | Stamford (from Chappaqua) |
Manny Banuelos (prospect) |
P |
| 250 | 11 | 10 | Green Bay | Nick Stavinoha | OF |
| 251 | 11 | 11 | Greensboro | Pass | |
| 252 | 11 | 12 | Long Island | Matt Tolbert | 2B |
| 253 | 11 | 13 | Baton Rouge | Akinori Iwamura | 2B |
| 254 | 11 | 14 | San Diego | Jason, Larue | C |
| 255 | 11 | 15 | Tidewater | Pass | |
| 256 | 11 | 16 | East Coast | Chris Valaika | 2B |
| 257 | 11 | 17 | Coney Island | Randy Flores | P |
| 258 | 11 | 18 | Turtle Beach | Pass | |
| 259 | 11 | 19 | Westchester | Pass | |
| 260 | 11 | 20 | Gulf Breeze | Cesar Puello (prospect) |
OF |
| 261 | 11 | 21 | Stamford | Jean Sugara (prospect) |
2B |
| 262 | 11 | 22 | Glab | Greg Halman | OF |
| 263 | 11 | 23 | Tampa | Adam Russell | P |
| 264 | 11 | 24 | Louisiana | Vance Worley | P |
|
|
|
|
|
|
| XTR | 1 | East Coast | Erick Threets | P | |
| XTR | 2 | Glab | Dustin Nippert | P |