When Captain Smith orders, "Take her to sea, Mr. Murdoch -- let's stretch her legs", they are standing to the right of the wheelhouse looking forward with the sun coming from their left. When Murdoch walks into the wheelhouse to carry out the order, the sun is behind him.
Cut them a little slack. The entire film took place on half a ship with the other half digitally added. Let's see you move the sun around while shooting a multimillion dollar film.
Kodiak
To the comment above: Good point!! And by the way, this movie did get best picture so obviously that blooper are not serious! You have way too much time on your hands to notice something like the sun moving around!