I'd honestly consider other options. We just got back with our 5yo and 21mo boys, and thought that the room was awfully tight once we had the PNP set up. If both of your kids can sleep in the beds by then, it won't be so bad, but we felt like we were tripping over the furniture (which IMO is too big and heavy for the room size) all week long. If our kids were past napping age, we wouldn't have spent near as much time in the room and it probably wouldn't have bothered us much either!
We were frustrated with the bus transportation by the end of the week. It wasn't horrible most of the time (we had a couple of 30 minute waits for busses), but I felt like we wasted a lot of travel time during the day getting back for naps. Next time around, we'd like to stay at an Epcot resort (Swan or Dolphin with DH's discount) so that we are walking distance from our favorite park, Epcot, and have a bigger room.
The animals at AKL, however, are amazing, as is the theming. It is so quiet and serene at AKL - it's still one of my favorite resorts for theming, just not for room size!