Honestly, I would go with a Tower Room at the Contemporary. I stayed at both the Polynesian and the Contemporary in January, and there is really no comparison.
The beds at the Contemporary are MUCH more comfortable, the view from the Theme Park View Rooms at the Contemporary is better than at the Poly, the Contemporary is MUCH cleaner, and I found the Cast Members at the Contemporary to be much more helpful and efficient. In addition, you can leisurely stroll "home" after a visit to the Magic Kingdom, and you do not have to go to a separate building to get to dining, etc.
At the Polynesian the carpet was disgusting, the beds were awful, the fridge started smoking during our stay (and according to the maintenance Cast Member this is a regular occurrence), and the person checking us in was EXTREMELY slow (and this was the online check-in line).
Unless you are staying Theme Park View Club Level at the Poly, definitely stick with the Contemporary.
Just take a trip over to the Poly during your stay to take a stroll through the tiki torches!
Congratulations, and enjoy your honeymoon!!