Hi!
I think Tinynanami has already done a great job giving a series of hints (better than I did anyway), so hopefully that helps. (But don't read them all at once!)
I'll just say though, thanks so much for your comments! It's so useful to know how other people interpreted different things, and it will definitely help with the next game... (Like, I think you're very justified in being suspicious of Annie's death, which I didn't really intend! Her death definitely makes things more confusing than I'd realised...)
Really glad you enjoyed it though. Good luck finishing it!
(Also, sorry this reply is a bit late, I didn't see the notification)