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The entire plot of the season was "is the time line fixed" culminating in proving that it isnt. Deke now exists in this time line.
If time were fixed he'd disappear once they changed the time line but that would also mean Fitz would have to stay alseep in order to set the events in motion.
Since they proved the timeline is not fixed they can wake Fitz AND Deke wont back to the future out of existence.
They covered this in black and white terms in one of the later eps of the season.
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