At the dawn of the Empire, Omega expressed an interest in joining the members of Clone Force 99, but the group's leader, Hunter, was initially unsure about allowing her among their ranks. After she warned them about the unscrupulous Admiral Tarkin ahead of a mission to Onderon, the Bad Batch returned to Kamino to save the young girl who was a mutated clone just like them. When Crosshair defected to the Empire, Omega alone showed compassion to the sharpshooter who seemingly could not control his impulses.
Caring for a child proved to be a new challenge for the elite soldiers. On Saleucami, they tried to give Omega a chance at a normal life in the care of Cut Lawquane and his family. But Omega wanted to be with Clone Force 99, not left behind.
The team soon settled in on Ord Mantell, finding work with a Trandoshan barkeep known as Cid. On a mission to Old Ord Mantell City, Omega found her own weapon, an energy bow, and proved an essential part of the team as they rescued a young rancor called Muchi.
On another job for Cid, Omega made fast friends with Trace and Rafa Martez, as the two sisters fought the Batch for control of a Separatist tactical droid. With the former Republic clone army now fighting for the Empire, the Clone Wars-era droid had valuable information to defeat the soldiers.
Danger was around every corner, and sometimes in the places Omega least expected it. She knew from her training that the clones all had an inhibitor chip that forced them into submission to the Empire's orders against their will, and endangered anyone who defied the new regime. Still, it took the appearance of former Clone Captain Rex and the malfunction of Wrecker's inhibitor chip to force Clone Force 99 to take action and protect Omega from themselves.
On Bracca, where disused medical facilities provided the tech to remove the batch's chips, Omega and her friends encountered Crosshair and his Imperial forces as well as another bounty hunter who would stop at nothing to bring Omega in.
The Bad Batch would meet their former brother soon after when Omega and her brothers returned to their homeworld of Kamino. Together, Crosshair and the rest of Clone Force 99 witnessed the planet's destruction by the order of Vice Admiral Rampart and his Star Destroyers. The Bad Batch were presumed dead, but together they escaped a watery grave, leaving Crosshair behind when he refused to join them once more.
Several months after the disaster on Kamino, Omega settled into life as a member of Clone Force 99. But she still had a lot to learn. On missions that took her and the team from treasure hunting in Dooku's castle on Serenno to acting as Cid's security detail at the riot racetrack of Safa Toma, Omega continued her lessons on the value of loyalty, saving lives while sacrificing material goods, and helping those in need, including getting the Jedi Gungi back to his homeworld of Kashyyyk.
However, Omega could not escape her past. At the behest of Captain Rex, the Batch ventured into the heart of the Empire, seeking intel on Coruscant that would uncover Vice Admiral Rampart's lies about the destruction of Tipoca City. Dazzled by Senator Riyo Chuchi's poise and conviction, Omega began to see others like herself trying to help the citizens of the galaxy. But the mission also brought her face-to-face with Emperor Palpatine and a hard-won lesson: sometimes you can do the right thing in a situation and still lose. Even more heartbreaking, at the end of the mission Echo decided to leave Clone Force 99 to help Captain Rex and other clones in the galaxy, leaving Omega feeling like her family was falling apart.