After the events of 2.0, Asuka has had cybernetic implants embedded into her body.
Let's look at the details:
In NGE, Shinji crushed Toji's entry plug with him still inside, causing massive injuries resulting in this:
At the very least he has lost his left leg here and quite possibly his left arm as well, as we don't see it protruding from the covers.
Now, in NTE, Shinji crushes Asuka's entry plug with her still inside, probably causing massive injuries resulting in that shot of her fully encased in some recovery coffin thing.
In 3.0, she is seen punching a thick glass barrier and it cracks:
There is no way that a person with a normally functioning arm could do that without injuring themselves in the process.
She also is never seen out of her plugsuit for the duration of the movie, potentially concealing any artificial limb(s) she might have underneath. We already know there's something going on with her eye, so it's not outside the realm of possibility that her eye wasn't the only part of her body that was modified.