Solution:
Call dots in the lower line that lie at the endpoints of arrows "target dots" and those that are not, "missed dots". If an arrangement has 2013 or more missed dots, pick a contiguous set S of dots in the lower line that includes exactly 2013 missed dots and t target dots.
Consider the set of t+2013 dots directly above the dots in S from which t+2013 arrows must initiate. At most t of them can terminate in S, so at least 2013 of them terminate outside S. But since arrows can only extend to dots 1006 outside of S on either side, there are only 1006+1006=2012 possible targets for those 2013 or more arrows, which is impossible.
Therefore it is impossible to have 2013 or more missed dots in a valid configuration.