The Fever Code: Maze Runner, Book Five; Prequel

Fever Code, the final book in the Maze Runner series, takes place immediately before the first book. We see the story of Thomas as he is taken in by Wicked from a young age. He is isolated and forced to change his name from Steven. He gradually learns of other kids, but still gets special privileges. He, along with a select few others get to help design the mazes. As part of it, he is able to view what happens. He is shocked to see that the monsters inflict real harm and that boys kill each other. That is not the only blood he has on his hands. The new chancellor tasks him and other immune kids with giving lethal injections to Wicked staff members that have contracted the virus. We learn that this new chancellor was treacherous, and had in fact spread the virus, and was later spreading false emails from others to explain it. Thomas thought he was going into the maze with his memories intact, but had them wiped at the last minute. He is regularly double-crossed.
Wicked is portrayed as a stereotypical government agency that exists so that it can exist. It's predecessor had initially launched the virus to help control the human population after sun flares wrecked havoc on the environment. After the virus spun out of control, they were tasked with finding a cure. They would adopt any means to justify the ends, including ripping children from homes and killing their parents. They employed gruesome means of controlling the children in their justification.
This book continues on the theme of "beware unintended consequences". Is it worth it to throw away human civility in the quest for a miracle? It seems easy to justify. If the miracle does materialize, everyone would be saved. If it doesn't, then everyone would be dead. Though the mortgage of morality in quest of the miracle may be the very thing that keeps society from the peace it needs.