1) At the end of this 10 year story, no one really knows what will happen. The developers could keep the servers going for another story arch, they could close the servers and start them back up having "fast forwarded" a few generations, or they could start an entirely new 10 year story set in a more technologically advanced period. It will depend largely on what we do as players and how well it is received. If people respond really well to this game and it makes the developers lots of money, chances are they will continue to keep things going.
2) Animals and NPC humanoids will have scripted behaviors fitting their role in the game, but the complexity of those behaviors is largely up in the air at this point.
3) Crafting will require both character skill and player skill to complete, as each crafting skill will have an associated user-based "task" (not saying it is a mini-game, but it is basically a mini-game) that determines the quality of the crafted product. Crafting will also give the option for researching better ways to craft for invention or efficiency, so there is going to be a lot for crafters to do. Items will degrade over time, with use, and for some items different components can be swapped out to change overall durability, appearance, or material composition.
4) Bloodlines will provide some mechanical bonuses as well as cosmetic features. I do not believe genetic diseases (mechanical penalties) will be included. No indication yet on how standard diseases will function.