Unlike the canonical game, Cesare Borgia is not confronted by the Assassins at the Piazza del Popolo in 1503 after losing the Apple only to be arrested by Fabio Orsini, nor is he killed by Ezio Auditore in personal combat years later in 1507 at the Siege of Viana.
Who killed Cesare Borgia?
The Renaissance political figure died on 12 March 1507. The Borgias came from Spain originally and the most famous of them died there, killed at the age of 31 in a minor skirmish by attackers who did not even know who he was.
Who does Ezio kill?
Within the palace, he eavesdropped on a conversation between Emilio and a government official named Carlo and learned that they would be holding a Templar meeting in three days at Santo Stefano. After Carlo left the palace, Ezio assassinated Emilio, and the rest of his guards were shot down by the thief archers.