Confederacy military The Confederacy military was the military force of the Confederacy of Independent Systems and it consisted of its military assets aligned against the Galactic Republic , including Separatist Droid Army and the Separatist navy . The army of the Techno Union was also placed at the disposal of the Separatists . Various other worlds also provided military units such as Umbara ' s Militia , Zygerria ' s royal guard , and several Kage Warriors . History . Origins . Thirteen years before the Fall of the Republic , the Trade Federation was allowed to maintain an army of B1 battle droid s to protect valuable shipments from piracy . The first major deployment of the Trade Federation ' s army was during the blockade and subsequent invasion of Naboo . The army fought against both the Royal Security Forces and the Gungan Grand Army . Other conglomerates , such as the Techno Union , had their own armies to protect their interests . During the Separatist Crisis , the Techno Union , Trade Federation and the other conglomerates then pledged their armies to Count Dooku and the emerging Confederacy of Independent Systems . Together they formed the basis for the Confederacy ' s droid army . Clone Wars . Following a meeting on Geonosis between Dooku and his allies , the Republic learned that the Confederacy would take the shipment and use their army to force the Republic to their demands . When Jedi Master Obi - Wan Kenobi was captured , the Republic ' s Supreme Chancellor Palpatine was given emergency powers by the Senate to create a Grand Army of the Republic , using an army ordered by Jedi Master Sifo - Dyas . Thus , both the droid army and grand army fought each other on Geonosis in the opening battle of the Clone Wars . Despite the defeat , the Confederacy was able to seize control of the major hyperspace lanes , thus separating the Republic from the majority of its troop s . The military would continue to be a effective fighting force against the Republic . The Droid armies under Grievous ' command would win multiple victories against the Republic , such as his capture of Eeth Koth and his bombing of Coruscant ' s central power distribution grid . Among Grievous ' most daring assaults was at the war ' s end when he launched an assault on Coruscant and attempted to escape with the Supreme Chancellor . However , it failed when Kenobi and Skywalker killed Dooku and rescued the Chancellor . End of the War . Following Dooku ' s death , Grievous became the last leader of the Confederacy and it ' s Separatist Council . However , his reign came to end when Kenobi found and destroyed him on Utapau . The military then fell under the command of the Council . However , their time ended when Lord Sidious ' s new apprentice , Darth Vader eliminated them on Mustafar . Vader also transmitted a master control signal that deactivated much of the Separatist military ' s droid forces . The elimination of the Separatists and the Jedi Purge enabled Palpatine to implement his Galactic Empire with himself as Emperor . Legacy . Despite the dissolution of the Confederacy , its legacy still remained in the form of Separatist holdouts and their battle droids . During the Imperial Era , several anti - Imperial insurgent groups including Cham Syndulla ' s Free Ryloth movement , Berch Teller ' s rebel cell , and Nevil Cygni made use of Separatist equipment including Vulture droids , communications jamming equipment , and capital ships . In 2 BBY , the former Clone Captain Rex and members of the Spectres rebel cell encountered the super tactical droid general Kalani and his Separatist holdout on Agamar during a salvage mission to obtain proton bomb s . Kalani had overrode the command signal on Agamar , believing it to be a Republic trick . Determined to end the Clone Wars on his terms , Kalani forced Rex and the Spectres to take part in a war game . The Jedi padawan Ezra Bridger convinced Kalani and Rex to put aside differences and make peace . The two sides then joined forces to escape an Imperial attack on Agamar . The future New Republic and Resistance starfighter pilot Temmin Wexley also rebuilt and befriended a heavily - modified B1 battle droid named Mister Bones . Mister Bones fought during the Galactic Civil War and met his end at the Battle of Jakku . Organization . Leadership . As leader of the Confederacy and its Senate , Dooku held the most authority over the Confederacy ' s military operations and its strategies . Only members of the Separatist Council such as viceroy Gunray , Emir Wat Tambor , and archduke Poggle the Lesser were known to take command of their military ' s various operations personally . Dooku , however , was busy with maintaining his civilian authority over the Confederacy , and many of his military responsibilities were taken on by his generals and servants . One of the Confederacy ' s best officers was the Kaleesh cyborg , General Grievous , who served as Supreme Commander of the droid army . Under Grievous and Dooku served a number of high - ranking officers including Asajj Ventress , Kleeve , and Coburn Sear . Army . The droid army was the largest army assembled , outnumbering the Republic clone army by 100 to 1 . The army was made of droid soldiers from organizations such as the Techno Union , Commerce Guild , and the Trade Federation . Navy . The Confederacy ' s navy composed mainly of ships used by the Trade Federation and Banking Clan . The navy was led , until its destruction at Coruscant by the " Invisible Hand " as General Grievous ' s flagship . The capital ships were also augmented by squadrons of starfighters , primarily composed of " Vulture " - class droid star fighters and Droid tri - fighter s .