The button holes are not that far off. Given that the material provides a nice grid, you can see that the first hole (nearest the cuff) is spaced a little bit further apart than the other holes (6 lines vs 5).
Visually, the problem seems to be the top button (farthest from the cuff). I assume this is the non-working button. It appears to be stitched below the button hole. I think if the button was reattached in its proper position, things would look fine.