^#2: Columbus Crew → Chicago Fire. 2007-01-12: Chicago acquired this pick and forward Ryan Coiner from Columbus in exchange for forward Andy Herron.[ref 1]
^#5: Los Angeles Galaxy → New England Revolution. 2007-01-12: New England acquired this pick from Los Angeles in exchange for a partial allocation and a second-round selection in the 2008 MLS SuperDraft.[ref 2]
^#6: New York Red Bulls → Colorado Rapids. 2006-04-21: Colorado acquired this pick, the #32 pick, and forward Thiago Martins from New York in exchange for forward Peguero Jean Philippe.[ref 3]
^#10: Colorado Rapids → Los Angeles Galaxy → Toronto FC. 2007-01-12: Toronto FC acquired this pick from Los Angeles in exchange for a partial allocation.[ref 2] Los Angeles had acquired this pick from Colorado in exchange for forward Jovan Kirovski on 2005-09-13.[ref 4]
^#14: Toronto FC → FC Dallas. 2006-11-17: FC Dallas acquired this pick and defender Adrian Serioux from Toronto in exchange for midfielder Ronnie O'Brien.[ref 5]
^#16: Kansas City Wizards → Los Angeles Galaxy. 2006-12-15: Los Angeles acquired this pick and a second-round selection in the 2008 MLS SuperDraft from Kansas City in exchange for goalkeeper Kevin Hartman.[ref 6]
^#17: Real Salt Lake → Colorado Rapids. 2005-02-23: Colorado acquired this pick from Real Salt Lake in exchange for forward Jordan Cila.[ref 7]
^#18: Los Angeles Galaxy → Colorado Rapids → FC Dallas. 2007-01-12: FC Dallas acquired this pick and a second-round selection in the 2008 MLS SuperDraft from Colorado in exchange for defender Greg Vanney, salary cap considerations, and a third-round selection in the 2008 MLS SuperDraft.[ref 8] Colorado had acquired this pick, forward Herculez Gomez and defender Ugo Ihemelu from Los Angeles in exchange for the #23 pick and goalkeeper Joe Cannon on 2006-12-01.[ref 9]
^#20: Chivas USA → Real Salt Lake → Los Angeles Galaxy. 2005-06-29: Los Angeles acquired this pick from Real Salt Lake in exchange for defender Paul Broome.[ref 10] Real Salt Lake had acquired this pick from Chivas USA in exchange for defender Douglas Sequeira on 2005-02-25.[ref 11]
^#23: Colorado Rapids → Los Angeles Galaxy. 2006-12-01: Los Angeles acquired this pick and goalkeeper Joe Cannon from Colorado in exchange for pick #18, forward Herculez Gomez and defender Ugo Ihemelu.[ref 9]
^#28: Columbus Crew → FC Dallas. 2006-01-20: FC Dallas acquired this pick from Columbus in exchange for a fourth-round selection in the 2006 MLS SuperDraft.[ref 12]
^#31: Los Angeles Galaxy → Colorado Rapids. 2006-04-07: Colorado acquired this pick from Los Angeles in exchange for forward Cornell Glen.[ref 13]
^#32: New York Red Bulls → Colorado Rapids → D.C. United. 2006-12-15: D.C. United acquired this pick and a third-round selection in the 2008 MLS SuperDraft from Colorado in exchange for defender Brandon Prideaux.[ref 14] Colorado had acquired this pick, the #6 pick, and forward Thiago Martins from New York in exchange for forward Peguero Jean Philippe on 2006-04-21.[ref 3]
^#33: Chivas USA → New England Revolution → Columbus Crew → Chivas USA → New York Red Bulls. 2006-11-27: New York acquired this pick and a designated player slot from Chivas USA in exchange for midfielder Amado Guevara.[ref 15] Chivas USA had re-acquired this pick (as a conditional pick) from Columbus in exchange for defender Ezra Hendrickson on 2006-04-28.[ref 16] Columbus had acquired this pick and a second-round selection in the 2006 MLS SuperDraft from New England in exchange for an allocation on 2006-01-20.[ref 17] New England had acquired this pick (as a conditional pick) and a second-round 2006 selection from Chivas USA in exchange for salary considerations on 2005-09-10.[ref 18]
^#35: FC Dallas → Colorado Rapids. 2006-02-14: Colorado acquired this pick and a third-round selection in the 2007 MLS Supplemental Draft from FC Dallas in exchange for the use of a Youth International slot in 2006.[ref 19]
^#43: Real Salt Lake → FC Dallas. 2005-01-19: FC Dallas acquired this pick from Real Salt Lake in exchange for the rights to defender Brian Dunseth.[ref 20]
^#45: New York Red Bulls → Los Angeles Galaxy. 2006-08-17: Los Angeles acquired this pick and a second-round selection in the 2008 MLS SuperDraft from New York in exchange for forward John Wolyniec.[ref 21]
^#48: FC Dallas → Real Salt Lake → New England Revolution. 2007-01-12: New England acquired this pick from Real Salt Lake in exchange for forward Kyle Brown.[ref 22] Earlier the same day, Real Salt Lake had acquired this pick from FC Dallas in exchange for a fourth-round selection in the 2008 MLS SuperDraft.[ref 23]
^#49: Colorado Rapids → Columbus Crew. 2006-01-20: Columbus acquired this pick, originally a conditional pick, from Colorado in exchange for defender Chris Wingert.[ref 24] The pick became a fourth-rounder when Wingert failed to start 8 games for Colorado in 2006.