Suppose, Total number of pineapples is d Then total number of fruits=d(2009+2009^2+1) Easy to see 31 divides it.

Let the number of bananas, lemons, pineapples in ship $i$ be $b_i, l_i, p_i$ respectively. Let $P=\sum p_i$. Then $l_i=P-p_i$. So $L=\sum l_i=2010L-\sum l_i=2010P-P=2009P$ $B=\sum b_i=2009L$ (Similarly). So $S=B+L+P=(2009^2+2009+1)P=\frac{2009^3-1}{2009-1}P$ It's clear that $2009\equiv 25\not \equiv 1\mod 31$ and $2009^3\equiv 25^3\equiv 625\cdot 25\equiv 5\cdot 25\equiv 125\equiv 1\mod 31$. So $31|S$