if you look at the link, it was shut down for bad clicks, incitement to users to click, or similar. at the very least he could have said in the reply something like "we don't think we have people clicking on links, but if you could provide some IPs we might be able to track down someone at the paper who's being over-enthusiastic".
even if he knows nothing like that has happened he could have added to the reply (talking about XML uploads, copyright issues) something like "these don't seem to fit into the ilicit activities listed. we don't have incitements to click on ads (see ...) so if the above isn't relevant we suspect there has been some mistaken clicking locally. we have educated the users and we've put in place the following measures to track ..."
instead, he shows no sign of having understood the issues and no inclination to help solve the problem. he just whines.
this is basic psychology. you need something from these people. so you try to act like you understand and want to help, even if you think they are incompetent assholes.
[edit: maybe i come across as unsympathetic. i can understand how maddening this must be. but surely that's more reason to get it fixed? and to get it fixed you need to cooperate, not act like a victim. at least, that's how i would play it (it's his job to make this work).]