MY thoughts are that this bird is nearly perfect in every way.
But, since you are making some adjustments...
I am not "convinced" by the nacelle root fillet/fairings:
It seems to me that they are too "nice" looking. That strongback is supporting a tremendous amount of mass, and what I like about Probert's refit is that the strongback looks like the skin is made of a different material, or that there are structural supports just under the surface and lightly skinned on top. I think your would look more "real" if there were more of a suggestion of that.