What are your personalities like? When your on vacation do you just want to kick back and relax away from it all? Or do you want to be in the center of everything? The YC and BW are right in the center of things, and the GF, Contemporary, and Poly are right along the monorail to get you places quick if you don't have a car. But if you want to kick back and be a bit more isolated the AKL or WL would be nice as well. The WL has boats to get you to places and the AKL apparently has great bus transportation.
What themes appeal to you? Personally as nice at the GF looks to some people, I get very bored with it. The Polynesian is more my style, but not busy enough. This is probably why we chose the CB over the Poly though!

Do you like animals? The AKL would be great! Do you prefer to be in a rustic setting? The WL would be fantastic!
How important are water activities to you? For us they were very important which is why we are spending the first half of our stay at a resort WITH water activities.
Splitting your stay is also a great idea! I gave my husband free reign of where we stayed and he couldn't make up his mind b/w the CB and AKL so were staying at both.
Also, try to find out the good and bad about every resort. A lot of people LOVE the GF but I hated it with an unrivaled passion. We had things stolen from our room and the staff told us there was nothing they could do about the, and I quote, "trivial" items, and they also said it was our fault our CLOTHES had been stolen. My family was rather outraged b/c clothes are impossible to lock up! And mind you we even still had our clothes in our suitcases and zipped up and everything! So just be careful before you make a decision. A friend of mine had the same thing happen at the WL (I've never been there but have heard great things) adn the staff went out of their way to help them until they found the CM responsible!
Happy honeymoon and best of luck in deciding on where to stay! The possibilities are endless!