Hey kuhlka, for when your boots get wet like you describe and even when they just get wet from sweating in hot weather, you should check out something like this:
Boot Dryer
They work awesome, and only operate at about 85 degrees so you never get your boots too hot and damage them. I used one for years when I worked out in the muck every day. If used regularly they also keep you boots from getting too funky.
Don't buy from Cabelas if you can help it; they're expensive. You should be able to find one locally for less $.