Normally, our system would only send you a Suspected Fraud Notice (instead of logging and processing the sale) if we found that the price paid for your item did not match the current price of the item when we receive the IPN from PayPal, suggesting perhaps some sort of price tampering may have occurred during checkout. By any chance were you editing the actual price of the product in Seller Admin when this transaction happened?
We DO take into account E-junkie Item Discounts and Cart Discounts when comparing the price paid vs. the product price. Are your discounts determined in the E-junkie Cart? Or are you applying discounts during checkout, using some settings in your PayPal account? The latter case could explain the problem, since our system has no way of knowing about any discounts applied after the cart sends the order to PayPal.