just my two cents...
Personally, I voted for WotC in two categories which I felt they deserved my vote...one for Wheel of Time, the other for Dragon/Dungeon magazine...
In each other category the product that won didn't deserve to win because the other products within that category were much better by comparison, especially Oriental Adventures. I say this because I own half of the books in each category, and I do know a lot of people who feel the same.
But, as others have said, WotC has such pull right now and their products are so widespread that by sheer numbers they have a serious advantage and even though other books within the categories are better in quality, and I beleive quality should win over quantity, reality does not work that way.
Dispite this, taking WotC out of the competition would be a very bad idea. This year might have been scewed in their favor, but next year it won't be. I say keep the same system, but next year we will see Everquest cleaning WotC clock as far as awards go, d20 Modern might win also in a category or two.
I also agree that we should have OGL/OGC only awards for those products that are like that, and we should have all the categories that we had this year also. No company should be shafted just because.
Add in a few more categories, keep it to five nominees and have only fan votes count. Also, when the Ennies are over, show us the total votes in each category so we can see for ourselves what the margin is, and perhaps if we saw that this year we wouldn't be complaining as much...(well, we would because there are so many products up for awards than what WotC published but they won because of their name as far as I see it).
This is the same kind of argument that I see and hear people talk about the Oscars. Public opinion should matter and we should see how the votes tallied. Without that knowledge, we will only speculate. We as people, we deserve to know what the vote tallies are because this is a public opinion contest, or so I interpreted. If we just voted and then judges decided out the winners amongst themselves and our votes didn't count at all, well, that is just wrong.
My two cents worth.