X-Men Days of Future Past: Logical Explanations for Various 'Plot Holes'

This post has major spoilers for the movie.

I have seen the movie and saw many questions online on why certain things in the movie happen seemingly without logic, which seem like major plot holes. I thought of the possible reasons to fill up those holes and listed them all down.


Questions and my answers:

How did Professor X come back from the dead in a wheelchair?
He might have been able to get into Phoenix's mind just before she tore him apart at her childhood home. He programmed/controlled her mind to use her powers to reassemble his body together somewhere far away from the house. Someone spotted the newly reconstructed but wounded Xavier and sent him to the hospital to get treated and wrapped up. Since the memory of his body is one that cannot walk, the reassembled Professor X would also be wheelchair-ridden.

Why does the future Wolverine have metal claws when those got cut off when he was in Japan?
The young Japanese woman that went on to inherit her grandfather's fortunes and become Japan's most powerful and richest woman, might have used the technology and the adamantium left behind by her grandfather to fix Logan's claws as a way to repay his help and restore his 'honour'. The Japanese are good sword makers and they would have no problem fixing Logan's metal claws.

What powers do the Sentinels have from the mutants?

It was mentioned that a scene where Rogue’s power got taken from her to be used for the sentinels was cut from the movie. This is why the sentinels are able to absorb mutants’ powers as well as different mutant immunities to such powers. Charles said that the sentinels are able to adapt to any mutant’s power with the help of Mystique’s DNA, which might mean that the sentinels are able to hold on to the power and immunities from any mutant DNA that was introduced to them, which is why each sentinel can have multiple mutant powers. Mystique’s power might also have been used by the sentinels to disguise as humans so that they could go undercover and attack mutants with the element of surprise. This is similar to the Terminator movies where robots can take on the form of humans by touching them and assassinate in human disguise.

At the end of the movie, how did Logan end up at the school with the main X-Men team back together?
The process to sent Logan back in time to correct the past was successful just when the Sentinels invaded the room where Kitty Pryde was working with Logan for the time-travel mission. Once Kitty Pryde stopped the procedure and Wolverine got severed from the past, the new reality took over in that moment in 2023 and it was a new reality where the school did not face the major problems found in the previous movies. Since mutants are more evolved than humans, they might age much slower than humans so the X-Men would still look pretty young in the final scene.

In the new reality, the young Professor X would have known of the mistakes done in the previous timeline when he accessed Logan's mind such as the mistake of restricting Jean's subconscious when she was young that eventually led to her demise. He chose not to do that in the new reality therefore Jean did not lose control of her mind and therefore did not kill Scott. This is why both of them are alive in the new reality. Jean's striking red hair colour might mean that she has the full powers of Phoenix.

Why did the Major’s eyes turn yellow when he was in the same room as Mystique?
He was probably another shape-shifting mutant that has the same interests as the government. Mystique asks him who he is in the beginning of the movie, hinting that he could be a mutant in disguise as a military officer. The major as seen in the closing scene probably was not Mystique.

Update June 1st: One more question and answer:

How did Rogue get back with Iceman even thought she didn't get to take the gene suppression shot? 
She got the bald headed boy to hide under her bed whenever she and iceman decided to 'get it on'.