You're probably not an atheist at this point, but I do highly recommend that you listen to the a podcast archived on The Thinking Atheist forum, called Secular Parenting, with Dale McGowan
http://www.youtube.com/watch?feature=player_embedded&v=_gxhPj_e-GU
McGowan has written books about raising kids outside of religious construct, such as Parenting Beyond Belief, and Raising Freethinkers. He acknowledges in the podcast that when one parent leaves the JWs, it's one of the most extreme and difficult situations to be in as a parent.
One question I have for you, is how do you plan to handle the 'blood thing' if it were to come up with your little boy? Could you allow your wife's JW beliefs to override your own, if a doctor told you that your son needed a blood transfusion?