The Onderonian navy was a sizable defense fleet of Onderon and subsidiary of the Onderonian military. It was composed of both Foray-class blockade runners, as well as Aurek-class tactical strikefighters. After the Jedi Civil War, Onderon's commander-in-chief, General Vaklu, used the navy to initialize a blockade of the planet, searching all ships for "Republic dissidents", in an attempt to put economic pressure on Queen Talia, so that she would be more open to the idea of secession. The navy briefly fought a fleet of commercial ships, after it attempted to destroy the Ebon Hawk, a Jedi vessel, inadvertently causing the nervous freighter fleet into thinking it was coming under fire.
The navy was most likely divided in its loyalties just as the ground forces of Onderon were during the Onderon Civil War, but what happened in the Onderonian navy during the war is unknown.