A handy list of ships currently used by the factions:
Holy Order of the Jedi Knights and the Republic
Capital Ships:
Cal-class Battleship
Centurion-class Battlecruiser
Core Galaxy Systems Dreadnaught
Crescent-X9
Hammerhead-class Cruiser
Heavy Cruiser
Heavy Cruiser
Interdictor-class Cruiser
Invincible-class Dreadnaught Heavy Cruiser
Jedi Cruiser
Old Republic Battle Cruiser
Republic Battlecruiser
Republic Battleship
Republic Command Ship
Rocket-Jumper Troopship
Sienar Battleship
Transports, Frigates and Shuttles:
Bivouac Transport
Envoy-class Shuttle
Foray-class Blockade Runner
Herald-class Shuttle
KT-400 Military Droid Carrier
Ministry Class Orbital Shuttle
Praetorian-class Frigate
Quartermaster-class Supply Carrier
Starfighters:
Auerk Tactical Strikefighter
Foerost Fighters
S-250 Chela-class Starfighter
Star Saber XC-01 Starfighter
TF-36 Falchion Starfighter
Sith Triumvirate
Capital Ships:
Centurion-class Battlecruiser
Derriphan-class Battleship
Interdictor-class Cruiser
Kyramud-type Battleship
Sith Dreadnaught
Supremacy-Class Attack Ship
Transports, Frigates, and Shuttles:
Darkside Assault Shuttle
Interlopers
KT-400 Military Droid Carrier
Krath Command Yacht
Tetan Assault Ship
Tetan Royal Space Yacht
Starfighters:
CX-133 Chaos Fighter
Sith Interceptor
Sith Starfighter
United Mandalorian Clans
Capital Ships:
Invincible-class Dreadnaught Heavy Cruiser
Kandosii-type Dreadnaught
Jehavey'ir-type Assault Ship
Kyramud-type Battleship
Lictor-class Dungeon Ship
Mandalorian Warship
Transports, Frigates, and Shuttles:
Mandalorian Fleet Carrier
Ministry Class Orbital Shuttle
Neo-Crusader Q-Carrier
Pursuer-class Enforcement Ship
Quartermaster-class Supply Carrier
[url=]http://starwars.wikia.com/wiki/Shaadlar-type_troopship]Shaadlar-type Troopship[/url]
Starfighters:
Basilisk War Droid
Davaab-type Starfighter
Teroch-type Gunship