Jim is put on the case when a daughter of a Cuban Mob member is found dead. In order to prevent a war, Jim needs to find the killer. Callie and Jeff get word that Ray is going to be released from prison.
When Detective Samantha Harper, a woman from Jim's past, comes to Florida, Jim and her have to team up before a killer kills again. They have a chemistry that Callie feels threatened by. Callie tells Manus that she would like to work for the FDLE.
A body is found by two 8-year-old girls and Jim is called on the case. Callie is hired on as a Forensic Nurse and Jim and her have a connection. The man is a Navy recruiter and they find that a baby's life may be in danger if they don't get to it before it is too late.
Songs: Hardnox -- Fist Pump, Big Hot Music Tracks Library -- Sweet Heart Breaker
When a 12-year-old girl gets pulled over and the police find the body of a NASCAR mechanic in the trunk, Jim is put on the case to find the killer. Ray is attacked and Callie has second thoughts about going with him when he goes into witness protection.
When a man finds a man killed at a rest stop, Jim and Carlos along with Dr. Perez, an old student of Carlos's, investigate further to see what the cause of death was and who did it. Carlos and Perez had a relationship together once, making for an awkward day at the office.
When a woman's body is found in a baby stroller in a area where the people are descendants of sideshow people, Jim is on the case to find who killed the woman.
When a Haitian doctor is found murdered, Jim pieces things together and finds that he was involved in illegal drugs and selling them as well.
When a minister is found dead in a pit of snakes, Jim is forced to go into the world of a religious sect that he knows nothing about to find a killer that could be in the midst of the members. Callie and Jim exchange awkward talk about the fact that Sam is gone now.
When a coach is shot, Jim is called in to investigate the murder. Jeff takes it hard and shuts down from Callie. She seeks the help of Carlos and his daughter Maddie. When the spotlight lands on a freshman who brought a gun to school, Jim races to solve the murder and reveal the person who gave the kid the gun in the first place.
When a Coast Guard Marine's finger is found inside a dead boar's stomach, Jim and Carlos go out to find the killer. This results in uncovering something bigger than just a murder as well. Jim and Callie decide to start over.
Jim is called on the scene when a man is found dead on the beach and the owner of a beachside bar is the main suspect. When a large diamond ring is found in the murdered person's pocket, more questions arise with Jim trying to find the girl that it belongs to.
An Ernest Hemingway look-alike is found shot in the head and adrift in the ocean; and an old lover from Callie's past arrives with a surprise.
In the Season 2 finale, ex-con brothers seize Callie's hospital and take hostages, and Jim and Callie must work together to capture the men and keep everyone safe.