Virginia Sherwood/NBC
September 14, 2016 at 04:40 PM EDT

Jane Doe’s life is about to get even more complicated when Blindspot returns for season 2.

After three months of being tortured at a CIA black site, Jane Doe (Jaimie Alexander) returns to the FBI, forced to rejoin the team to bring down the mysterious organization that inked her. Suffice it to say, not everyone is pleased about working with Jane in the wake of her season 1 betrayal. Now the question is: Will Jane’s mission to infiltrate the organization end up causing her to ultimately turn on the FBI? EW caught up with Alexander to get the scoop on season 2. (Read our deep dive with executive producer Martin Gero here.)

ENTERTAINMENT WEEKLY: What is Jane’s mindset when we pick back up with her?  

JAIMIE ALEXANDER: Well, she’s been held captive for three months in a CIA black site, so I think that’s a lot of time to reflect. She’s definitely in the mindset of taking charge of her own life and really standing up for what she wants.

What kind of guilt does she feel in the wake of Mayfair’s death?

She definitely has a guilty conscience about all that and she wants to make it right, but in a way it’s double-sided because she feels that the team pretty much gave her to the CIA. She’s been beaten everyday for three months straight, so there’s a lot of anger and resentment going on and sadness, so it’s definitely a heavy start to the season.

How hard will it be to gain that trust back?

There are a lot of trust issues and it’s not easy. She’s being forced to work with them. Her two options are do this and work with the team or go back to the CIA. She’s obviously going to stick with the team. She definitely cares about them all very much and she understands how angry, upset, sad, and devastated they are, but she also is as well. It’s all about trying to understand one another and trying to move forward. That’s going to be a very difficult process for awhile.

How has her relationship with Weller (Sullivan Stapleton) changed?

It’s changed dramatically. I mean there’s still a love there, but it’s very damaged, extremely damaged. There’s a lot of trust issues, anger, resentment, and fear — all those things combined. Nobody feels like they really know each other now, which is sad.

How does Jane feel about this organization that she had been working for?

She’s just trying to learn — she’s trying to learn more about these people, and more about herself before she can make an educated decision on what her next move is going to be. She doesn’t feel the same about the FBI, that’s for sure. There’s obviously some problems there as well, so it’s kind of like the lesser of two evils. She’s really trying to figure out who’s right and who’s wrong and I don’t think it’s that cut and dry.

How is she torn between the FBI and the organization this season?

She’s finding that there are holes in both. There’s bad people on both sides and she’s really trying to use her intuition and instinct to guide her. She’s starting to learn a lot about who she used to be, who these people are and who they were to her, and it’s starting to wake up something inside of her. Now she’s really starting to ask questions on both sides. Every time she meets with the organization, the stakes get higher and higher and the lines get a little more blurred, so it’s going to be interesting to see where she goes from here.

What kind of relationship does she have with Shepherd?

Shepherd is a tough one. As it stands right now, because I don’t read ahead, it seems to me that Shepherd is the boss. But I think that Jane is the most talented member, you could say, of this organization and that’s why they chose her as the one to infiltrate the FBI rather than someone else. I would love to see Shepherd and Jane go head-to-head, but I don’t know what’s going to happen.

EP Martin Gero has said we’ll learn Jane’s real name and her motivations for joining this organization very quickly. What has surprised you about the answers to the mysteries?

They’re all really valid answers. What happened to Jane would make someone really not want to be a part of our society, like support our government. Like I said, there are holes on both sides, there are bad things on both sides, but both sides are very justified, so it’s hard to form a solid opinion on who’s right and who’s wrong. But the things that have happened to Jane in the past that truly happened are potentially going to make her lean towards the organization. Again I don’t read ahead, to be honest I’m kind of guessing, but it’s enough to make her question our government, it’s enough to go up and say to Weller, “You guys aren’t doing the right thing either. There are bad apples here and I know my organization has some bad ones too, but so do you and you need to start taking a look at that.” There’s a lot of red flags popping up on both sides right now.

Oscar would manipulate Jane by calling her Taylor. Now that that card has been played, how can this group control her?

I think it’s just information. They are giving her so much information every time they see each other. They’re not so much controlling her. She’s being forced by the FBI to do all of this, so I don’t think she would naturally want to be a part of the organization again, but she’s being forced to. There’s no serious effort on the organization’s behalf because Jane just keeps showing up, so it’s really twisted. They naturally think she wants to be there, she’s come back to them, she knows just about everything that’s going on. It just seems to them that everything is falling into place really well, which is going to make for some interesting stuff later on.

What are we going to see of Jane getting her memory back?

There’s going to be a lot of flashbacks, she’s going to be taken certain places that trigger memories that are very, very central to the storyline. It’s pretty great because our showrunner’s definitely decided to give the audience a ton of answers because the first season was “Who is Jane Doe?” but now you’re going to find out and now it’s like, “What is she going to do?” and that’s almost a scarier plotline. But as for Jane, she’s going to learn a lot about who she is, you’re going to know her real name in the first episode, you’ll know where she was from, where she was born, what happened to her when she was a kid, why she is as skilled as she is. It’s a ton of information. I mean it really sets up this season explosively.

To read more from our Fall TV Preview, pick up the new issue of Entertainment Weekly on stands now, or buy it here – and subscribe for more exclusive interviews and photos, only in EW.

What can you say about her dynamic with Roman (Luke Mitchell)?

They’re very similar. He was part of the organization. His skill set is extremely high, but not quite what Jane’s is, so that’s an interesting thing to play. He’s very, very, very protective of Jane, extremely protective of Jane. He’s definitely a sociopath. [Laughs] He’s unpredictable, which is a really great character to play. He’s such a great addition to the cast.

How is season 2 different?

To me, it feels a lot darker. That’s something that I really enjoy, but I would say whereas the first season there were a lot of questions being asked, this season there’s a lot of answers. There’s obviously going to be more questions, but it’s not going to be as crazy as the first season. This season is heavier, it’s far more emotionally heavy than the first season and again we have bigger stunts, bigger everything. We’ve also taken on some really fantastic additions to the cast, which are incredible — Michelle Hurd being one of them and Archie Panjabi is amazing. We’ve just been pretty lucky. I feel like everything has been amplified in the best way possible. It’s extremely satisfying.

RELATED: Archie Panjabi reveals how her Blindspot character is different from The Good Wife‘s Kalinda

Blindspot’s second season kicks off Wednesday, Sept. 14 at 10 p.m. ET, before moving to its regular timeslot on Wednesday, Sept. 21 at 8 p.m. ET on NBC.

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