These are listed in cannonical chronological order.
A full list is available here.
Darth Bane: Path of Destruction (2006)
Darth Bane: Rule of Two (2008)
Saboteur (2001)
Cloak of Deception (2001)
Shadow Hunter (2001)
(Episode I)
Rogue Planet (2000)
Outbound Flight (2006)
The Approaching Storm (2002)
(Episode II)
The Clone Wars
Republic Commando: Hard Contact (2004)
Shatterpoint (2003)
The Cestus Deception (2004)
The Hive (2004)
Republic Commando: Triple Zero (2006)
MedStar I: Battle Surgeon (2004)
MedStar II: Jedi Healer (2004)
Jedi Trial (2004)
Yoda: Dark Renezvous (2004)
Labyrinth of Evil (2005)
Republic Commando: Order 66 (2008)
(Episode III)
Coruscant Nights I: Jedi Twilight (2008)
Coruscant Nights II: Street of Shadows (2008)
Dark Lord: The Rise of Darth Vader (2005)
The Force Unleashed (2008)
Han Solo Trilogy
The Paradise Snare (1997)
The Hutt Gambit (1997)
Rebel Dawn (1998)
Han Solo Adventures
Han Solo at Star's End (1979)
Han Solo's Revenge (1979)
Han Solo and the Lost Legacy (1980)
Lando Calrissian Adventures
The Mindharp of Sharu (1983)
The Flamewind of Oseon (1983)
The StarCave of ThonBoka (1983)
Death Star (2007)
(Episode IV)
Splinter of the Mind's Eye (1978)
Allegiance (2007)
(Episode V)
Luke Skywalker and the Shadows of Mindor (2008)
Shadows of the Empire (1996)
(Episode VI)
The Truce at Bakura (1993)
The Courtship of Princess Leia (1994)
Tatooine Ghost (2003)
Dark Forces
Soldier for the Empire (1997)
Rebel Agent (1998)
Jedi Knight (1998)
Thrawn Trilogy
Heir to the Empire (1991)
Dark Force Rising (1992)
The Last Command (1993)
Callista Ming Saga
Children of the Jedi (1995)
Darksaber (1995)
Planet of Twilight (1997)
I, Jedi (1998)
The Jedi Academy
Jedi Search (1994)
Dark Apprentice (1994)
Champions of the Force (1994)
The Crystal Star (1994)
The Black Fleet Crisis
Before the Storm (1996)
Shield of Lies (1996)
Tyrant's Test (1996)
The New Rebellion (1996)
The Corellian Trillogy
Ambush at Corellia (1995)
Assault on Selonia (1995)
Showdown at Centerpoint (1995)
The Hand of Thrawn Duology
Specter of the Past (1997)
Vision of the Future (1998)
Survivor's Quest (2004)
The New Jedi Order
Vector Prime (1999)
Dark Tide I: Onslaught (2000)
Dark Tide II: Ruin (2000)
Agents of Chaos I: Hero's Trial (2000)
Agents of Chaos II: Jedi Eclipse (2000)
Balance Point (2000)
Recovery (2001)
Edge of Victory I: Conquest (2001)
Edge of Victory II: Rebirth (2001)
Emissary of the Void (2001)
Star by Star (2001)
Dark Journey (2002)
Traitor (2002)
Destiny's Way (2002)
Force Heretic I: Remnant (2003)
Force Heretic II: Refugee (2003)
Force Heretic III: Reunion (2003)
The Final Prophecy (2003)
The Unifying Force (2003)
Dark Nest Trilogy
The Joiner King (2005)
The Unseen Queen (2005)
The Swarm War (2005)
Legacy Of The Force
Betrayal (2006)
Bloodlines (2006)
Tempest (2006)
Exile (2007)
Sacrifice (2007)
Inferno (2007)
Fury (2007)
Revelation (2008)
Invincible (2008)
Fate Of The Jedi
Outcast (2009)
Omen (2009)