AB,
Until you get a natural explanation for conscious thought, and what drives it, you can't discount a supernatural explanation.
First, there already is a natural explanation for conscious thought. It's incomplete (as are most explanations for observed phenomena, for example gravity) but it's still an explanation whether or not it conflicts with a superstitious belief you happen to hold.
Second, if by "discount" you mean something like, "show to be definitively wrong" then no-one does that. If though you mean something like, "have been given no good reason to think to be true" then yes of course you can discount it.
Third, you cannot reject one explanation on the ground that it's incomplete to replace it with a explanation that's entirely devoid of content of any kind. Thunder isn't entirely understood either, but that does not me justify me asserting Thor to be the correct explanation instead.
By the way, any progress yet on finally coming up with even one argument for god that isn't logically false?