Hmmm... well, Noah finding the box and getting taken inside isn't meant to be fated, just coincidental as you said. I'm sorry you don't like that, but I just needed a way for him to find the box and touch it, and considering the imagery surrounding biblical Eden I decided that inside a tree was a fitting choice. Then it was just a case of giving him a reason to be at the tree and so on and so forth.
Noah's character isn't meant to be happy-go-lucky. Personally when I read through it that's not how he comes across to me. Before entering the box, there isn't any character development though. His character is somewhat established - as someone that wants a quiet life, shirks responsibility, doesn't want others to have any expectations of him. He has no friends, and he doesn't feel like he has much of a place in the world. When he enters the box I had to try to show that he was unnerved and disorientated and didn't want to be there either, but I wasn't ever going to spend a lot of time showing how he adjusts. I wasn't even meant to spend a lot of time focusing on the stuff happening outside the box in the first place. It just happened... He accepts things quickly, but that's just to keep the ball rolling, so I decided that it was best to not give him the chance to want to know more. Moreover, wanting to know stuff doesn't really fit his character in the beginning anyways. Pandora answers his questions on the most notable stuff anyway. Regardless, for the purpose of plot, Noah's character must show that humans are capable of change and good things - that is the major rule that I am following for his character.
Pandora is not a comedic character. Her only motivation is the reclamation of her powers and so is not afraid of the Creatures of Eden, hence why she may not appear to share the same level of concern as Noah. I don't quite know how you read her dialogue, but I tried to write her as a passive character that's always there in the background to guide Noah to act, and to observe Noah during his time in the box. A lot of the questions the reader may have at this point will stem from the fact that a lot of stuff, like who the 4 beings are and why Eden now exists in Pandoras box, is not being explained to Noah by Pandora, and I want you to know that is intentional.
When I continue writing I will probably just go through and add in a bit more description to the second half. There are points where it does feel as if the actions that are happening need to have a distinct interaction with the environment and the writing doesn't achieve that. But I'm not going to write this in first person, sorry.