In an interview with Entertainment Weekly Snyder said that the consequences of the battle were the whole point and that he was shocked at the reaction the ending received.
I was surprised because that’s the thesis of Superman for me, that you can’t just have superheroes knock around and have there be no consequences.
Now we understand that obviously those “consequences” are the main motivation behind Batman’s desire to take down Superman in the upcoming sequel, Batman v. Superman: Dawn of Justice.