Darker and Edgier: Year 2 is shaping up to become this, especially with cold fusion research being hounded by a mysterious group, Francesca rejoining Elizabeth after thinking Luna had caused Timothy to break up with her, and Luna herself apparently contemplating a Face-Heel Turn.
He Knows Too Much: Control takes out a Bruckenstein infiltrator right in front of a five-year old Luna. When asked why, Control states that it's to protect her as the spy knew too much. This causes concern with Luna, fearing that Control will take out anyone who gets close discovering Luna's secrets.
Idiot Ball: Count Von Brucken tends to hold this a lot, most notably in Volume 7 when Oliver dumps Luna after seeing him in her house. After Luna loses her temper on him, he's called out on his idiocy by Control.
Benjiro, Control/Jennifer's father was established to be jerkish when he was introduced in AAL, but in the prequel AAJ, he is shown to have mellowed with age. As far as he was concerned, Jennifer should have done nothing in school that would have distracted her from learning to run his business better, to the point that he had already forbidden her from going to the Olympics as a swimmer. When she takes the Agency scholarship and no longer relies on his paying tuition allowing her to choose her own curriculum, he even forbids her mother from going to her graduation.
My God, What Have I Done?: Jonah, when his mother's real intentions with Jia start to sink in. After everyone survives the resulting Embassy explosion, he agrees to let Anders destroy the disk containing sensitive cold fusion data, and the two call a truce.
Never My Fault: Benjiro and Emily every time Control running away from home is brought up. They outright refuse to see how they were in the wrong.
No Such Agency: Well... The Agency to the point that the CIA has no idea they exist.
Not So Different: Recently, a subject of discussion is that Control/Jennifer and her father Benjiro aren't that different. Both are strict to their child, trying to shape their life. Jennifer seems to have taken the extra step by actually engineering her kid. Both see it as doing what's best for their children, and neither like it when things don't go as expected.
Not So Stoic: Control when she breaks down in front of Andrew why she pushes Luna so hard. She's afraid that if The Agency ever sees Luna as a failure, they will destroy her... her daughter.
Oh Crap: Elizabeth's Big "NO!" upon realizing Count Von Brucken dropped by to kidnap her.
Plot-Mandated Friendship Failure: Luna and Francesca when Francesca thinks Luna has caused Timothy to dump her and may be hiding more secrets, and Luna and Oliver when Oliver spots Count Von Brucken (who he had assumed was rotting in prison at the time) inside the house, thinking he's a Karma Houdini compared to his own father. These events may contribute to a Face-Heel Turn from Luna, if the description of Volume 8 is anything to go by.
Precision F-Strike: Luna has exactly one swear in the entire series so far: "Damn! He's gone. You guys cost me my shot at following Tromperie." Swearing by other characters, for that matter, is also rare.
Another notable instance comes from Dr. Andy, who wants to know why Control's so hellbent on shaping Luna into a killer.
Villain Has a Point: Master Control isn't wrong in that The Agency treats its agents as overly expendable, and that they deserve better. The point is made clearer when the Agency considers "terminating" Luna and replacing her with another expendable experiment.
You Are Grounded: Happens to Luna in chapter 20. It seems to have been lifted by the start of volume 5, though.