The series starts by introducing Aditya Sharma as a cab driver who comes from a middle-class family. He had plans of meeting his friends at a pub after completing his work, but a foul-mouthed lady sits in his cab and keeps on changing location, because of which all his night plans become jeopardized, while talking to her they realize that they are alumni of the same college. The lady suffers from mood swings, so it can be easily come to know that she is a drug addict. The lady's name was later revealed to be Shanaya Rath.
Aditya gets caught in the police station itself when the neighbour who goes to there to give his statement identifies him as the man he saw running out of the apartment. The police inspector 'Raghu Salian’ and the others search him and they find the murder weapon (they at least assume it to be) with him. While interrogating, Madhav Mishra a street-smart advocate happens to mistake Aditya's case to be case and tells Raghu Salian that he is Aditya's lawyer, he then realises that he will be handling a murder case and that's how his life changes. Madhav Mishra informs Aditya's parents about the crime and that Aditya has been accused of murdering and raping Sanaya Rath. Aditya is produced before the magistrate within 24 hours and he pleads not guilty, however, his request for bail is rejected by the Magistrate. Because of which he will be placed in Police custody for 14 days. Aditya agrees to do a narco test, and a selected portion of it is shown online. People start shaming the taxi services company where Aditya will be working. Aditya's brother-in-law soon starts getting harassed by recovery agents due to non-payment of loan. Aditya's sister loses her job and the entire family becomes a victim of ridicule by the society. Raghu Salian is hell bent on proving that Aditya is the murderer. Mandira Mathur, a Supreme Court advocate soon starts looking after Aditya's case, she starts representing Aditya and becomes the defence lawyer and Advocate Bhandarkar becomes the public prosecutor. She has a knack with her usage of words, she helps drop Aditya's charge on rape by proving that it was consensual, but however fails to get him an acquittal. Aditya is asked to sign a plea bargaining agreement (where if you plead guilty your sentence will be reduced), as all the evidences point towards him. Mandira Mathur drops the case and Nikhat, her assistant starts representing Aditya as she asks Aditya to listen to what his heart says, because of which Aditya pleads not guilty.
The series soon drifts into life spent by a convict in prison, this is where we can draw similarity between Criminal Justice Season 1 and Shawshank redemption, where you see Aditya slowly adapting to the prison environment, just like Andrew "Andy" Dufresne. He joins Mustafa and gang, after being rescued by Taklya when Layak Talukdar tries to rape him. The prison is entirely split into two groups, Layak's gang and Mustafa's gang. Aditya starts jelling with Mustafa and gang and in one of the episodes, Aditya is sent to Solitary confinement for 1 year along with Mustafa for being wrongfully caught for peddling drugs in the prison. And then the series focuses on how Aditya starts rebelling against Layak becoming like one of the member of Mustafa's gang. Meanwhile, Aditya's sister divorces her husband and battles for child custody, Aditya's father starts earning again to survive. But they are still left with hope that Aditya will get released from the prison one day.
Coming back to the case, Nikhat and Madhav start investigating the case together and they build a good rapport with each other. Nikhat, Madhav and Raghu Salian soon find out that Sanaya Rath is a drug addict, and she was a volunteer in LDFR, a drug rehabilitation centre, run by Naresh Lakani and his wife Kanika Lakani, a girl named Pallavi (ex-employee of LDFR) reveals that Naresh Lakani runs a racket of child prostitution by trading under privileged children. Sanaya wanted to reveal this secret to public and Kanika Lakani wanted to stop this from happening. In the end, Aditya fights with Layak and when he is about to kill him, Mustafa does it for him. Aditya is released from the prison. He comes out braver and better than what he was before going into prison.