Will choices you made in Season 1 carry over and affect Season 2?
Edit: Whoops, I thought this was about Batman at first, where the choices of Season 1 do affect Season 2. If the Season 2 story is linked with Season 1, then it would be nice to have influential choices, but it's been a number of years, and some people may not remember what they did.
They do. If for some reason the game can't find your Season 1 choices, you're asked how you decided in a few noteworthy situations, and it infers your other choices based on that. Or you can tell Season 2 to randomize your Season 1 choices, in which case things will be confusing.