Triple Zero

"As the Clone Wars rage, victory or defeat lies in the hands of elite squads that take on the toughest assignments in the galaxy-stone-cold soldiers who go where no one else would, to do what no one else could. . . .
On a mission to sabotage a chemical weapon research facility on a Separatist-held planet, four clone troopers operate under the very noses of their enemies. The commandos are outnumbered and outgunned, deep behind enemy lines with no backup-and working with strangers instead of trusted teammates. Matters don't improve when Darman, the squad's demolitions expert, gets separated from the others during planetfall. Even Darman's apparent good luck in meeting an inexperienced Padawan vanishes once Etain admits to her woeful inexperience.
For the separated clone commandos and stranded Jedi, a long, dangerous journey lies ahead, through hostile territory brimming with Trandoshan slavers, Separatists, and suspicious natives. A single misstep could mean discovery . . . and death. It's a virtual suicide mission for anyone-anyone except Republic Commandos.

From The Publisher:

Following the eruption of the bloody Clone Wars at the battle of Geonosis, both sides remain deadlocked in a stalemate that can be broken only by elite warrior teams like Omega Squad, clone commandos with terrifying combat skills and a lethal arsenal. . . .
For Omega Squad, deployed deep behind enemy lines, it's the same old special ops grind: sabotage, espionage, ambush, and assassination. But when Omega Squad is rushed to Coruscant, the war's most dangerous new hotspot, the commandos discover they're not the only ones penetrating the heart of the enemy.
A surge in Separatist attacks has been traced to a network of Sep terror cells in the Republic's capital, masterminded by a mole in Command Headquarters. To identify and destroy a Separatist spy and terror network in a city full of civilians will require special talents and skills. Not even the leadership of Jedi generals, along with the assistance of Delta squad and a certain notorious ARC trooper, can even the odds against the Republic Commandos. And while success may not bring victory in the Clone Wars, failure means certain defeat.
Also includes the bonus story Omega Squad: Targets by Karen Traviss!