Ensign Sue was a Puella Magi at some pointBecause it will be obvious for her to go for the God route like Madoka. This also explains why there was that last bit in the comic. It's like Madokami.
Ensign Sue is really QThink about it. Which character in Star Trek is both a reality warper and a huge pain in the ass?
This series is a self-insert fanficThat's why God is Sue.
Ensign Sue will become a normal personShe's already lost her Reality Warper powers, but is still an annoying, Sue-like person. Without her powers, the universe won't warp to conform to her view of the world, meaning she will have to change to suit it.
Kirk is not a Sue
Canon!Logan is not Woverine-SueThe sue appearing in the comic is a Copycat Sue, mimicking all of Logan's powers and personality, but being "better" than him. Canon Logan has character flaws, and had black hair, whereas Wolvie-Sue probably has no flaws, and has blonde hair. (That, and I sorta think that Canon!Logan would spit take on seeing what he looks like in Ensign Two)
God!Sue is the spirit of Lt. Mary Sue
Kirk and Spock will be able to shake off their Sue status.
Ensign Sue is the daughter of God Sue.
Only one Sue can affect the universe at a time without being noticed.That's why the Enterprise crew didn't fall for her charms: they already had Kirk as a "resident" Sue. The future crew was able to boot Anna Mae because Wesley occupied their universe's Sue slot. It's been speculated that the longer a Sue remains in a universe, the more they warp the characters' minds, but when the original landed in Harry Potter, her power was in full effect the moment she arrived, so that can't be it. Picard's...mannerisms...have some other explanation (maybe because Anna Mae, unlike Mary, seems to be malevolent instead of Obliviously Evil).
Sue!Spock is The Mole to the sues.That's why he tried to get them to tell him their full plans. And if he were truly converted, wouldn't he be more enthusiastic about marrying Wolverine!Sue?
Ensign Sue would be the only able to defeat God Sue.Ensign has started to go through a painful but necessary Character Development and has been gradually losing her Sue-ish-ness, but she's still the prototype God Sue created so she's the only one who can face the Sues' reality warping/mind alterning powers. Thanks to Character Development and discovering real empathy, she'll because an actual Chosen One.
Denny Crane is actually Prime!Kirk.With Prime!Spock subdued and frozen in carbonite, Captain James T. Kirk attempts to reach his alternate counterpart without attracting the attention of the Sues. After all, who is more likely to be noticed? The famous prime counterpart of James Kirk, a possible Sue, or an attorney agent from Boston in the early stages of Alzheimer's? Alternatively, it's the man himself, using an alias from one of his previous roles.
Prime!Kirk will appear at some point.
God Sue is the spirit of Prime!Ensign SueShe's always constantly saying that she will return to Star Trekk universe and will make everybody love her this time. Probably she was first in the Prime timeline, where they managed to kill her with the Red Shirt. But being the Mary Sue she was, she didn't died but turned into God-Mode Sue. She created Ensign and put her into the crew again, knowing that Prime!Spock will tell his younger self how to kill her, allowing Ensign to met her and spread the Sue virus all over The Multiuniverse. In Ensign3, she finally arrived to the material plane, being her first words "I'm home".
The story will end on a bittersweet noteEnsign Sue was never meant to be part of the time-line or at least not stand out from it. If all the Sues are being undone, even the Ensign would probably end up having to go in order to maintain the state of the timeline. Perhaps the crew would end up having their memories of her being taken...
Super Spock is the result of the original Sue's Powers going out of control.Naturally, she couldn't handle the thought of killing Spock herself, so she subconsciously resurrected him in his current state. Of course, whatever powers Spock has gained from this are irrelevant. The important thing is that she cannot stop him from talking her to death anymore.