In the sterile laboratories of Kamino, the ailing clone trooper Tup and his friend Fives are quarantined for examination following Tup's shocking murder of a Jedi Master. With the help of medical droid AZI-3, Fives is determined to get to the bottom of Tup's condition and uncovers a secret deep within the Republic cloning program.

Fives continues to push for answers regarding the mystery of the clone contamination and secures an audience with Supreme Chancellor Palpatine. But the situation quickly collapses when Fives is accused of attacking the chancellor, and he must flee deep into the Coruscant cityscape while pursued by his fellow clone troopers.