It's always a shame when a merchant treats their affiliates thoughtlessly. My advice is always to reply to them, be polite and explain where you think they're going wrong. It's not uncommon for employees with little experience with affiliates to be given the job of managing the program which can cause issues. If this doesn't work then contact the network and they should sort it out for you. If that doesn't work a lot of affiliates will take it to a public forum, not sure why you can't name this merchant specifically maybe for legal reasons.
Either way, hope you get it sorted out.