As a Republic trooper your training emphasized the necessity of obeying orders and as a clone trooper your genetics programmed you to obey orders. Your squad is assigned to a planet-wide military action under the command of Jedi Padawan Gisen-Vo when Order 66 is given. Your opinion of Gisen-Vo as a commander doesn’t matter; an order has been given, and even on the edge of the Empire orders are followed.