Did you see the twist for your character in the finale coming at all?
Joshua Jackson: They thankfully gave me a heads-up a couple months before that happened so that I didn't read it and think that I had been fired. It sounds a little bit like a tag line, but it is the truth. The great thing about our show is that if we can dream it we can do it. I don't think anybody really saw that twist coming. I was only told about it four or five months in advance, but I think that's amazing. To put the last frame of the show in the World Trade Center is incredible. I love our show for that. It should keep on pushing boundaries and envelopes like that.

Do you think that Peter and Olivia will have some sort of romantic relationship or do you hope that they don't? What are your feelings about that?
JJ: My estimation is that I feel like this is more of a family dynamic than a romantic dynamic. What's unique and what's great about our show is, as opposed to having just a leading man and a leading lady, you have this crazy father in the center of it. That would be a very, very awkward love triangle so I don't think they're going to go in that direction. I see Peter and Olivia as more brother and sister rather than lovers on this show. Where they're going to take it, I have no idea, but for right now I run under the assumption that this is father, son, daughter rather than boyfriend, girlfriend, dad.

When we first met you in the first season we got a sense of this kind of dark background that you had, doing arms dealing and such. Will we get back to that?
JJ: Yes. We actually delved right into that very early in the season. We kept on hinting at it last year, but never showing it and it's not a problem of the format of the show. It's not called Peter's Fringe. It's difficult to put these characters' back-stories into the show. That's not true, not their backstories; it's difficult to put their outside lives into the show. Does that make sense?

J.J. Abrams said that he was trying to keep the series accessible to new viewers. Do you think that can continue with all the mythology that's been introduced?
JJ: Yes. We're just starting the eighth episode this year and I would say that we are, I guess the eighth episode is a mythology-heavy episode. I'd say we're about 50/50 for episodes that are heavy into the big back-stories and stories that are just sort of one-off investigations. The idea is also that regardless of whether it's a mythology episode or part of the larger story or not, each one of these investigations in every episode will always have a beginning, middle and end. Even if it is a heavy mythology episode you can still tune in and get a satisfying story as opposed to tuning in to the story halfway through.

Has working on Fringe altered your perception of public transportation and pretty much everything else?
JJ: Strangely, I still fly, which you would imagine that you would be a little nervous as you worked on the show. No, it hasn't really altered my perception of public transportation too much. In fact, I still take public transit to work; I guess Fringe has inoculated me.

What's it like working with Leonard Nimoy?
JJ: I've been shafted so far; in fact I'm going to lodge a formal complaint through this conference call. Leonard's been up here twice and while I did get to meet him and that's cool, I have yet to be able to do a scene with him and I think that's un-cool. That's something that needs to be added to the Peter and Walter Bishop, I mean William ..., scene tout de suite.