My Ford Super Cab had a flat load floor when I flipped up the seats and I kept a kennel behind the front seats. My current Ram Crew Cab has storage under the seats that makes the floor uneven with the seat flipped up (some trim models have a storage area cover making a taller load floor) - I now have the kennel riding higher up on the seat instead of the floor.
I suggest you look at a few different truck cabs since there is also a variation between the extended and crew cabs. Some are optioned with additional audio gear or storage under the seats which may not work for you.