Although Mythbusters is not a peer reviewed scientific source, they do employ reasonable standards of experimentation.
And the first source you posted is particularly interesting, with similar conclusions to what I remember from Mythbusters; that lids reduce the total number of particles found, but that the particles produced from lid use last longer and are larger. So a lid closed situation can;t really be said to be more hygienic.
Unfortunately on a cursory skimming of the other articles none of them seem compare toilets with lid down to lid up, they all seem to look at lidless toilets only. Thus, they can;t really speak to the topic of lid use being more hygienic without the direct comparison.
Calling people who disagree with you misguided when it comes to purely matter of tastes is not just talking about one's opinion, but is in fact insulting other people for no reason. So fuck the author of this particular article.