1 + 4: different animals have different needs, some animals will have the need to swim and others less so, depending on the species.
2: that's perspective! The other juvenile is clearly further away

3: yup all animals poo and your zookeepers will come and SCOOP THE POOP!
5: as confirmed at the end of the E3 Gameplay Demo, animals will seek shelter from weather conditions they don't naturally enjoy. Chimpanzees will find shelter from rain, but for example Timber Wolves will be fine outside in the snow. Shelter can come in many different forms: frames, trees, bridges, buildings - it's in your hands really.