Because Edea is Ulti and she is still possessed by X.
Why canīt you see my theory has internal consistency even if it goes against the script almost entirely?
Not only that but it was backed up by many graphical details and events.That is lack of intuition.
X can time travel,can send his consciousness to the past and future and has no real magical power.
Whatever happens on the game that sugests the opposite is manipulated by X.