It depends on what you sign. If it states in writing that you give permission for multiple pulls, than yes. If not then just 1 per CRA. You will need to see a copy of what you signed. I know they count as one, but when you apply for something else they still show up as many to the lenders eye. I would still tell them to remove them. I think they will if you just ask.... in person and refuse to leave. 12 sounds pretty excessive. I would not stand for it. You definitely need to see what you signed before you jump on them. What they did could even be illegal. Imagine how fast they would remove them if not stated on the paper you signed. Hope this helps.
They need to fax the remove request to each cra to speed things up. You need to get a copy of the fax to ensure that if it does not come off you can dispute. With a letter from the dealer stating error, you should be able to dispute with even EX by mail. Good luck. I have never seen 12 "hard" hits before on the same report from 1 place. Upsetting.