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Although it is clear as soon as you open "faq" that this is a site for research level math questions, it is not so clear if you click on "how to ask". Perhaps it should be made clear there as well.
This is just a guess but I imagine downvoting is coming from users that don't have the ability to vote to close. These are also more likely to be users less-inclined to frequent meta.MO.
At least in the early days of MO, I recall moderators would give gentle e-mail notices to people who inappropriately downvoted.
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