okay here are my opinions on who those three characters that die are going to be [warning there are spoilers for the books and maybe the show too i guess? i did a lot of research for this it took forever]
so i've thought about this a lot, trying to narrow down who will die
also, just so you are aware, i have yet to read any of these books, but i am doing research right now to make sure that all the facts i mention in here are as true to canon as they can be.
okay, let's just assume that the "three characters" who are going to die are major characters that we already know, and whom we have seen at least twice
here is the list i came up with - i originally just had the first nine, but remembered the last two three soon after:
frederick chilton? i suppose he is an option
one of the dogs. i wasn't going to add this one, but i changed my mind.
now, going a little off topic for a minute, the plan for the show is to reach the red dragon story line in season four. obviously, hannibal and will are out, and i imagine, if the writers are going to stay as true to canon as possible like they have been, jack is not an option, nor is alana (from what my research shows me).
here's where the spoilers start coming in okay
so freddy lounds, freddie's male counterpart in red dragon, dies at the hand of francis dolarhyde, who is expected to appear in the show in season 4. originally, before doing this quick research, all i knew was that freddy died in canon, so i figured freddie was an obvious option for this. however, now that i know how, when, and by whom he dies, i'm not so sure she'll die in season 2. but whether it be season 2 or season 4, i'm betting that freddie will die eventually.
next on the list are beverly/jimmy/brian. i couldn't find much information on these three, but the info that i did find said nothing about any of their deaths. since they appear to be pretty minor characters in red dragon, the hannibal writers could essentially do anything with them. therefore, i'm led to believe that any one of these three could be killed off. watch out.
bedelia du maurier appears to be an original character from what i can tell? i searched around for her name in regards to red dragon, and also just tried to see if hannibal had a therapist by another name in the books, but i found nothing. i could be wrong, and correct me if i am, but it seems like dr. du maurier was never in the books at all. so she's definitely an option too, i suppose. anything could happen to her.
as you all are aware, bella crawford has lung cancer. she dies towards the end of silence of the lambs (referring to the book - it's been a while since i saw the movie, and i don't recall if she was in it or not. according to imdb, she was not, but i don't know if she was mentioned), however i'm not sure if the show is planning on going that far into the hannibal timeline. anyway, bella is similar to freddie lounds in this way, i think. she could die this season, or she could die later, but either way, i believe that her death is ultimately going to appear in the plot.
frederick chilton. no matter what adaptation of the story you are reading/watching, it sounds like chilton dies no matter what. at the end of sotl (book), hannibal sends chilton a letter "promising gruesome vengeance". then, in hannibal (book), it is mentioned that chilton went missing, and it is assumed that hannibal kept his previous promise. in the movie version of sotl, hannibal is seen following chilton through a village in the caribbean. so, again, it seems to me like he's going to die someway/sometime or another.
finally, i'm just gonna touch on the dogs. winston is the most likely one to die, i assume, because he's the only one we really know, and the one who, i believe, bryan fuller would most consider a "character". i'm just gonna pretend i never said this though, because killing winston would be THE WORST
so recap: freddie, bella, and chilton all die or are at least assumed dead in canon, but all later in canon than where the show is right now. not much is known about beverly, jimmy, or brian, and bedelia is - as far as i know - an original character, so all of them are open options too. also winston.
to be honest, i kinda just figured this out as i went along. at the start, i thought i'd have a more definitive answer by the end, but that clearly didn't happen.
also if anyone is reading this, please don't take this to heart, these are just my own deductions. to be honest though, this research has definitely made me feel a little more confident that alana bloom won't die. at least i hope not.
but yeah, despite how worried i am now, i'm looking forward to the new season. and hey, we should have seen this coming. they made it a whole season without killing anyone off - well, except abigail, i guess - so they have to make up for it somehow.