About the Train Station...(only up to Season 4)

*** Heavy Disclaimer *** I over-analyze things, it's just the way I'm wired.

So Chuck becomes the Intersect 2.0 and Sarah invites him to run away with her at the train station. For the entire first season Chuck's only desire is to return to his normal life. Then when he finally accepts his destiny and uploads 2.0 and Sarah asks him to leave with her, he can't. Even though that's what he's always wanted. He even asks her if this was all over could they finally be together. Still, I get that. He now has the 2.0 and he can do a lot of good so he feels a responsibility to do so, thus he joins the spy game and leaves her at the train station.

But then again in Season 3 he officially becomes a spy saying that now they can be together. Why does he think him becoming an actual spy is the only thing keeping them apart? Is it because she is married to the spy life? If that is the case then why do they immediately go AWOL? They both think it's what the other wants. But if Chuck thinks Sarah wants to leave the spy business, why does he think he needs to become a spy? Or is this a desire that she has only voiced recently?
If that's the case then why was she willing to leave the life behind the season before?

Here is my theory. Sarah wants to run away with Chuck because even though she loves being a spy, she's willing to give up that life for him. He turns her down thinking he can do more good as a spy with the 2.0. Then he thinks if he becomes a spy he can be with her because of her commitment to the spy game. So when he finally becomes an agent, he thinks their lives will line up. But then when they get together they want an extended leave of absence to prolong their time together which leaves them to entertain the idea of not coming back just so they can be together longer. Each one gradually learns that they miss being spies in their own way but has now the idea that the other wants to run away still.

Or maybe. Chuck always saw 2 ways for Sarah and him to be together. She leaves the spy business and runs away with him OR he becomes a spy. Since getting the 2.0 the former is no longer possible because of his sense of duty and acceptance of his special gifts. Which is why he is desperate to become an actual agent. The running away in Season 3 is not related at all but just a product of their "honeymoon" and weighing their options.

I absolutely love this show and the characters. Funny that I avoided it on my Netflix for so long before finally deciding to give it a chance.