| Postseason: |
Lost World Series (4-0) to Boston Red Sox Won NL Championship Series (4-0) over Arizona Diamondbacks Won NL Division Series (3-0) over Philadelphia Phillies |

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Transactions listed are from November 1 of previous year to April 1 of the following year.
October 2, 2006
Randy Williams granted Free Agency.
October 6, 2006
Jason Smith granted Free Agency.
October 12, 2006
Nate Field granted Free Agency.
Justin Hampson selected by the San Diego Padres off waivers.
October 13, 2006
J.D. Closser selected by the Milwaukee Brewers off waivers.
Mike Venafro granted Free Agency.
October 14, 2006
David Cortes granted Free Agency.
October 15, 2006
Jose Acevedo granted Free Agency.
Steve Colyer granted Free Agency.
Bret Prinz granted Free Agency.
Carlos Rivera granted Free Agency.
Josh Wilson granted Free Agency.
Alex Serrano granted Free Agency.
October 31, 2006
Vinny Castilla granted Free Agency.
Ray King granted Free Agency.
Tom Martin granted Free Agency.
Kazuo Matsui granted Free Agency.
Jose Mesa granted Free Agency.
November 1, 2006
Mike DeJean granted Free Agency.
Chin-hui Tsao granted Free Agency.
November 10, 2006
Signed Bobby Keppel as a free agent.
November 13, 2006
Signed Kazuo Matsui as a free agent.
November 22, 2006
Signed Chad Bentz as a free agent.
November 29, 2006
Signed Eric DuBose as a free agent.
December 1, 2006
Signed Edwin Bellorin as a free agent.
December 5, 2006
Signed LaTroy Hawkins as a free agent.
December 7, 2006
Signed Tom Martin as a free agent.
December 12, 2006
Traded Miguel Asencio and Jason Jennings to the Houston Astros. Received Taylor Buchholz, Jason Hirsh and Willy Taveras.
December 14, 2006
Signed Geronimo Gil as a free agent.
December 16, 2006
Signed Mike Gallo as a free agent.
December 22, 2006
Signed Danny Graves as a free agent.
January 9, 2007
Signed Javy Lopez as a free agent.
January 12, 2007
Signed Dave Veres as a free agent.
Traded Jason Burch (minors) and Jim Miller to the Baltimore Orioles. Received Rodrigo Lopez.
January 15, 2007
Signed John Mabry as a free agent.
January 24, 2007
Signed Brian Lawrence as a free agent.
January 30, 2007
Released Choo Freeman.
February 7, 2007
Signed Frank Menechino as a free agent.
February 8, 2007
Signed Alexis Gomez as a free agent.
February 12, 2007
Signed Russ Johnson as a free agent.
February 18, 2007
Signed Matt Herges as a free agent.
February 24, 2007
Signed Steve Finley as a free agent.
February 28, 2007
Signed Mike DeJean as a free agent.
March 1, 2007
Signed Tim Olson as a free agent.
March 12, 2007
Released Javy Lopez.
March 22, 2007
Signed Jorge DePaula as a free agent.
March 23, 2007
Released Danny Graves.
March 28, 2007
Sent Russ Johnson to the Pittsburgh Pirates as part of a conditional deal.
Jeff Salazar selected by the Arizona Diamondbacks off waivers.
April 26, 2007 (Standings)
Released Brian Lawrence.
May 13, 2007 (Standings)
Traded Byung-Hyun Kim to the Florida Marlins. Received Jorge Julio.
May 14, 2007 (Standings)
Released Eric DuBose.
May 29, 2007 (Standings)
Released John Mabry.
June 1, 2007 (Standings)
Released Frank Menechino.
June 13, 2007 (Standings)
Released Steve Finley.
June 14, 2007 (Standings)
Signed Kevin Walker as a free agent.
July 25, 2007 (Standings)
Released Tom Martin.
July 27, 2007 (Standings)
Signed Tim Harikkala as a free agent.
July 31, 2007 (Standings)
Signed Dan Serafini as a free agent.
August 3, 2007 (Standings)
Signed Todd Williams as a free agent.
August 11, 2007 (Standings)
Signed Elmer Dessens as a free agent.
August 14, 2007 (Standings)
Released Jorge DePaula.
Released Dave Veres.
August 15, 2007 (Standings)
Traded Matt Macri to the Minnesota Twins. Received Ramon Ortiz.
August 16, 2007 (Standings)
Signed Jolbert Cabrera as a free agent.
August 17, 2007 (Standings)
Released Mike DeJean.
August 19, 2007 (Standings)
Signed Mark Redman as a free agent.
August 31, 2007 (Standings)
Geronimo Gil granted Free Agency.
September 11, 2007 (Standings)
Alvin Colina selected by the Cincinnati Reds off waivers.
October 1, 2007 (Standings)
Alexis Gomez granted Free Agency.
Bobby Keppel granted Free Agency.
October 10, 2007 (Standings)
Dan Serafini granted Free Agency.
October 11, 2007 (Standings)
Ramon Ortiz granted Free Agency.
October 15, 2007 (Standings)
Tim Harikkala granted Free Agency.
October 29, 2007
Jeremy Affeldt granted Free Agency.
Jolbert Cabrera granted Free Agency.
Mike Gallo granted Free Agency.
Jorge Julio granted Free Agency.
Zach McClellan granted Free Agency.
Tim Olson granted Free Agency.
Kevin Walker granted Free Agency.
Todd Williams granted Free Agency.
October 30, 2007
Elmer Dessens granted Free Agency.
Josh Fogg granted Free Agency.
LaTroy Hawkins granted Free Agency.
Kazuo Matsui granted Free Agency.
Mark Redman granted Free Agency.
October 31, 2007
Rodrigo Lopez granted Free Agency.
Yorvit Torrealba granted Free Agency.
November 7, 2007
Matt Herges granted Free Agency.
November 14, 2007
Signed Zach McClellan as a free agent.
November 29, 2007
Signed Matt Herges as a free agent.
Signed Yorvit Torrealba as a free agent.
November 30, 2007
Signed Mike Rose as a free agent.
December 4, 2007
Traded Denny Bautista to the Detroit Tigers. Received Jose Capellan.
December 6, 2007
Jose Capellan drafted by the San Francisco Giants in the 2007 rule 5 draft.
Steven Register drafted by the New York Mets in the 2007 rule 5 draft.
December 7, 2007
Sent Jamey Carroll to the Cleveland Indians as part of a conditional deal.
December 12, 2007
Sean Barker granted Free Agency.
Darren Clarke granted Free Agency.
December 13, 2007
Signed Chris George as a free agent.
Signed Luis Vizcaino as a free agent.
Signed Kip Wells as a free agent.
December 14, 2007
Signed John Koronka as a free agent.
December 17, 2007
Signed Micah Bowie as a free agent.
December 19, 2007
Signed Mark Redman as a free agent.
December 20, 2007
Signed Sean Barker as a free agent.
January 3, 2008
Signed Brian Esposito as a free agent.
January 4, 2008
Signed Darren Clarke as a free agent.
Signed Josh Towers as a free agent.
January 6, 2008
Signed Matt Kata as a free agent.
January 8, 2008
Signed Tony Blanco as a free agent.
Signed Marcus Giles as a free agent.
January 20, 2008
Signed Cedrick Bowers as a free agent.
February 8, 2008
Signed Victor Zambrano as a free agent.
February 17, 2008
Signed Valerio de los Santos as a free agent.
Signed Scott Podsednik as a free agent.
March 5, 2008
Signed Fernando Seguignol as a free agent.
March 26, 2008
Sent Ramon Ramirez to the Kansas City Royals as part of a conditional deal.
Signed Humberto Cota as a free agent.
March 27, 2008
The New York Mets returned Steven Register (earlier draft pick).
The New York Mets returned Steven Register (earlier draft pick).
March 28, 2008
The Cincinnati Reds returned Jose Capellan (earlier draft pick).
March 29, 2008
Sent Matt Kata to the Pittsburgh Pirates as part of a conditional deal.