I love the CR, especially for a 2 night stay. Sure the standard room is in the garden wing, but standard view rooms aren't in the main building of the Poly or the GF either. Some rooms in the Poly can also look at a parking lot, many are nice, but not all are great views. At the CR you book standard vs garden so you know what you will get. Garden view rooms in the Poly are nice, but garden view rooms in the CR are lovely too, and huge and comfortable!! They have nice views of Bay lake or the pool area. Sure, upper floors don't have balconies, but not all rooms at the Poly have balconies either.
The CR is walking distance to the MK!!! That saves you waiting for transportation - you can be in the MK in the length of time you could be waiting for the monorail at the other resorts. If you only have 2 days, convenience and saving time will be the most important factor as you will want to make the most of the little time that you have.
Finally, you can't beat the value of the rooms in the CR! Prices from Mousesavers for value in 2014:
CR $387, $432 GW SV $432, $465 GV
GF $549, $589 GV
Poly $482, $517 GV,
I have stayed in all three resorts and love them all, but for a 2 night stay, I would lean toward the CR.