- The alpha team rescues an alpha from a group of hooded thugs, then discover she is a former associate of Dr. Rosen who wants nothing to do with him.
- Open with armed men storming a young woman's apartment. The place is filled with gadgets. She seems to have a robotic insect floating around her. She collects several items, including the bug and ducks out a window. As soon as the men are inside, she blows the building.
Dr. Rosen (David Strathairn) and Sullivan (Valerie Cruz) get to know one another over some dinner. He is surprised she is such an outside-the-box thinker in her private life.
Bill (Malik Yoba) and his wife have a discussion about having children. She is clearly hearing the sound of her biological clock, but he doesn't seem excited about the idea.
Gary's mother calls Rosen to say Gary (Ryan Cartwright) is sick and won't be able to come into work. After she hangs up, we see she is lying, telling Gary that Rosen has told her he isn't needed that day.
Hicks (Warren Christie) tinkers with an old toaster and flirts with Nina (Laura Mennell) about it. Rosen makes a comment to Nina about a possible relationship with him. They get a call from Sullivan. An Alpha, Skylar Adams (Summer Glau), is missing.
At Skylar's place, we learn the team knew Skylar. Her hobby is related to inventing. Rachel (Azita Ghanizada) figures out men in assault boots were chasing her. Skylar was ready for them. Nina had some sort of friendly relationships with Skylar, though they haven't spoken in years.
Nina gets a man who sold Skylar specialized parts that she was meeting a buyer at a farmer's market.
Cut the farmer's market where Skylar is selling a dude some kind of sleep machine. Just as the transaction is complete, she spots the same men from the opening. She takes off. They chase after her. The men catch her just as the Alphas arrive on the scene. Hicks knocks the gun out of one of their hands. Bill grabs her and throws Skylar in a car driven by Rosen.
Back at HQ, Skylar doesn't seem thrilled about being followed. She refuses to tell Rosen who was after her or what they may have wanted. We learn years earlier Rosen made an offer for her to work with them but she declined. Rosen says he won't force her to do anything against her will, but they need to figure a few things out first.
Bill asks Hicks about his kid.
Back at home Gary realizes his mother lied to him about Rosen not wanting him to work that day. Gary has told his mother about some of his work and it has clearly spooked her. She doesn't want him to return to work with Rosen. He yells at her to leave.
Skylar is working on something when Nina comes to visit her.
Sullivan tells Rosen that Clay (Mahershala Ali) is on his way to collect Skylar.
Skylar still won't say what she's up to. She makes a few cracks about Nina and her team being order-taking "flunkies."
Sullivan says the plan is to place Skylar in protective custody and have her work for the government.
Sitting on his bed at home, Gary spots a team of men with guns arriving at the backdoor of Alpha HQ. He sends Bill a text and team prepares. Clay and his DOD agents arrive at the same time and confront the men who've been chasing Skylar. They are NSA. Skylar shows up and places a device on the ground. It renders everybody incapacitated, allowing her to escape.
Gary sees what is happening and sneaks out of the house.
In just a few minutes, Skylar made a device that used sound and light to stun everybody. Bill isn't happy Skylar showed no appreciation for them saving her. Nina is furious the plan is to give Skylar over to the government.
Gary hails a cab.
Clay tells Rosen that Skylar has been communicated with someone named "Z." The code's algorithm was sophisticated enough the NSA couldn't break it. They suspect she could be working for a foreign government, or even Red Flag.
Nina comes home to find Skylar grabbing stuff from her apartment.
Rosen tells the team they are now in a joint operation with NSA, though in reality it's a finders, keepers mission. Bill tracked a car he believed Skylar stole and had police track it to Nina's apartment.
Cut to Nina driving Skylar in her car. Skylar convinces her to toss her cell phone. She wants to be taken off the map, but first needs to stop so she can "kill Bob." Bob is located at a NSA facility in Connecticut. A guard turns a gun on them. Nina gets them out of trouble. Bob is a super-computer run by an advanced processor Skylar built herself. It is the reason the NSA has been able to track her. She takes out the processor and places an explosive inside.
Gary is dropped off at Alpha HQ and finds everyone missing. He picks up one of Skylar's bugs and realizes he can track her using it.
At the NSA facility, Rosen gets a call about Gary running away. Clay tells them about the capabilities of Bob. Rachel tells them the process is gone. Clays says her contact with Z has increased.
In Maine, Nina and Skylar stop for provisions. Nina says she wants answers, but Skylar still refuses. To Skylar's chagrin, Gary gets dropped off at the gas station. She decides Nina is no longer the way to go and tosses a device of some sort before bolting.
The team has now reached Nina and Gary, who got a shock from Skylar's device. Rosen tells Nina about the rumors of Red Flag's involvement and says he needs her help. Skylar has stolen another car. Rachel thinks she can track it.
We cut to Skylar arriving at a home. She tells an older man she doesn't have much time. He tells her Z is upstairs.
The team arrives at Skylar's location. Gary helps Hicks get in the home via an upstairs window. He walks in gun drawn only to find a little girl drawing "Zoe" on a piece of paper. She asks if they are looking for her mother.
Skylar tells the team her daughter has off-the-charts quantitative aptitude. She knew the NSA would never let her keep her daughter if they knew what she could do, so she had her uncle keep her hidden.
Clay arrives at the house. Rosen tells him Skylar got away. He seems to sense Rosen let it happen.
Gary has a long conversation with his mother, explaining working with the team is what makes him happy.
Sullivan tells Rosen that Clay is raising hell about his report regarding Skylar. She tells him protecting his team is her toughest job.
Rosen and Nina meet with Skylar at a remote location. The deal for her helping them was to hand over a processor; a device Rosen knows could be used to track every alpha in the world. He smashes it.
Back at Alpha HQ, a cappuccino machine has arrived and the team tinkers with it. After Hicks pushes the "ladies" (i.e. Nina and Rachel) out of the way, then fails to figure out how it works, Nina steps back in to demonstrate how the machine works. Rachel muses whether the machine could give her advice on men, thus opening the door for Gary to relate a bad joke that Bill had made. Gary says to Rachel, "you like your coffee like you like your..." But before Gary can finish, Hicks interrupts him, saying, "men." But Gary finishes his joke anyway, "Bill said women."
Bill's wife opens a package and finds a book about older couples having children.
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