Depends on your headcanon. I prefer to think she has two eyes but is too chuuni to live life without an eyepatch. That's countered by it representing the ship's destroyed searchlight, but meh.
She can see 3D in VR as well as she can see it in the rest of her life...
And it would at least have the function of head-angle tracking and blocking all outside vision so that she gets entirely into it and doesn't notice Tatsuta and Admiral recording it.