If Bitstamp really added an extra 0.01 to all those transactions, they've stolen $13.17. That's 1% of the fees I've paid. I can see this being a problem, if you are a spammer of 0.01 BTC trades.
Have you considered that maybe your dickish attitude is why you aren't getting any help with your problems? You seem to have a crusade against Bitstamp.
Well, I have a use for 13.17 USD, please consider sending me a similar amount, I really need it.
P.S. I don't use API and even when doing large enough trades, sums like -0.03 USD were appearing in the balance too often for my comfort!