I'll refrain from commenting at length on how this game has you shooting at a person who is a anti-imperialist revolutionary hero for many.
But I must say, for historical accuracy, that Che surrendered once Prado's unit surrounded him in a ravine. He was executed the next day as he refused to answer to interrogation and the Bolivian president feared public uproar if Che were to face trial.
The CIA (who backed the operation) wanted him brought to Panama. Instead, Che was executed by a single soldier (Sgt. Téran) to whom he supposedly shouted his last words "Shoot, coward! You are only going to kill a man!"
Indeed, the ideas have not died with him.