I would chose CR CL Bay Lake view, conditionally.
First, we're big fans of CL; it's pretty much a "must" for our family. I would always choose CL over an upgraded view. However, if you're not going to be at the resort to take advantage of the food/beverage offerings and you're the type that does all your own planning, you might not see the benefit of CL. We find it to be a huge convenience well worth the cost, though. So that knocks CR TPV out of the running. Plus, you can go to the CL lounge and watch Wishes with the music piped in, then go back to your Bay Lake view room to watch the water parade. Best of both worlds.
Second, we preferred the look of the CR rooms to the Poly, and we also preferred having everything under one roof (including the line for the monorail!). Not to mention being able to walk to MK.
However, if the tropical theme of the Poly really appeals to you and/or you'll be spending a lot of time at the pool, then I'd probably choose Poly CL.