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I've been thinking of ways of weaseling around this and doing something like have their affiliate link url load in a hidden iframe on my site and then have normal product links since the cookie has already been set. Or have the actual link load a frameset where the affiliate link loads hidden in one of the frames, and the product page loads in another.
This is not something like me linking directly to the products that they are losing money on or anything. There is no reason the merchant themself should be upset by the traffic in this situation, but can anyone see a reason why this would be a bad idea or an idea that wouldn't work?