But the initial Psionic booster serum proved to be unstable and drove the recipients insane as they used their Psionic abilities. Therefore, it was theorized (and later put into effect) that the injection of the serum in the fetal period would make the children's brain adapted to the exhilarating effects of the serum. Moreover, some radical Psionics misused the power and started terrorizing civilization. This gave rise to the creation of the Department of National Psionic Control (DNPC), which had field agents, who were Psionics themselves, to control the acts of terrorism. But, due to carelessness or misuse of these abilities, the lives of innocent by-standing civilians were endangered. One such incident is why Agent Cain was suspended from the DNPC (Cain was the creator of the Fire totem, which will be revealed in a later part of the game). These incidents gave rise to the aggression control chip, implanted in the Agents' brain to control the use of Psionic abilities on innocent civilians.
A new research of Aiken Pharmaceuticals aimed to make the use of Psionic abilities without having any effect on the Sanity of the person. This experiment was started among a group of children, called the Children of Tomorrow (CoT).
When the game starts, Cain has just been suspended from the DNPC following an incident with Priscilla Divine, leader of the Eye of Ra (a radical organisation who wish to destroy the CoT project for ethical reasons) and founder of the Sun totem. He is eventually recruited back and tasked with infiltrating the Eye of Ra, who have been operating under the guise of a psychic hotline, and apprehend Divine. He is assigned with a controller, Frost, who observes Cain's activities in the Field. During the mission, he meets with a child from the CoT group, Manda, who warns that a darkness is approaching and it is up to Cain to stop it. Cain eventually gains access into the Eye of Ra. Once he is inside, he gets a call from a secret agent, asking Cain to take down Priscilla divine at all costs. Cain refuses to do that, and later after further infiltrating in to the Eye of Ra, he apprehends Priscilla Divine, who asks Cain to fight with her, against the actual enemy, that is Aiken Pharmaceuticals. Cain declines her offer and tries to capture her, but could not, so he brings her down. Just before Cain is about to deliver the final blow, Priscilla says that her "death doesn't matter" and that "Golgotham will destroy us all".
He returns to the DNPC to find that they are protecting another CoT, Bobby from unknown forces. Bobby and the other CoT can use their psionic abilities without having any effect on their sanity whatsoever. Abel, who is the brother of Cain and the founder of Storm Totem, breaks in, lets some of the inmates loose, and tries to kidnap Bobby, but Cain manages to hold him off until the DNPC arrive and use Psionic suppressors, forcing him to flee.
Cain is later told that a shipment of Aiken's test serum from when the labs tried to make the serum suitable for adults was stolen. The magician Adrian Starr, founder of the Illusion totem, is a suspect, and Cain is instructed to visit and question him. During Cain's search for an entrance, he helps a Voodoo collector, retrieve a skull from a church, who then asks Cain to visit one of his friends, (with the premise that they both have some things in common). Once he visits his friend, he is Ambushed, and Cain meets with Golgotham, who seems like a Powerful psionic. Golgotham asks Cain to join him so that they can welcome his Master to the world. Cain refuses, and immediately Golgotham summons Priscilla's Monsters. Cain fights them and resumes his search for the Theater's entrance. In between this, he is again contacted by the Secret government agent, who wants to meet with Cain. During their meeting, the Agent says that Cain did a good job eliminating Priscilla Divine, and provides him with a talent, which gives him access to the Theater. When he visits Starr, he first refuses to answer his questions, saying that he has to prepare for the magic show. Then Cain infiltrates the Grand theater, and finds himself among Starr's showgirls, and fights them all, only to be captured and made to participate in Starr's Gameshow. After hurdling all the obstacles,he finally meets with Adrian Starr, only to learn that he wasn't responsible for the break in. Adrian also suggests Cain to visit Aiken Pharmaceuticals, so that he might get some answers from there.
Now, Cain goes on to pay a visit to Aiken pharmaceuticals, and before entering the facility, he encounters Golgotham again, who puts forth his earlier request again, asking him to join him to welcome his master. After Cain refuses, he summons Priscilla's monsters and Adrian's Showgirls. After fighting them he enters Aiken pharmaceuticals, mingles with a Tour group, breaks away from them, and helps around some scientists and engineers with their daily duties. During this time, he is contacted by the Secret agent, who asks him to keep all his investigations to himself so that the reputation of the Pharmaceuticals isn't tarnished. After a while he discovers a deeper level of the facility and accesses it. There, he discovers the Children of tomorrow, and learns that he was also raised in foster care at Aiken pharmaceuticals when he was a child. He is also warned that only he can stop the coming darkness, and to do so he will need the Artifact that Aiken discovered, which is with Aiken at her secret lab. To gain access to Aiken's secret laboratory, he acquaints with a prisoner who has a keycard for accessing her office. After getting it, he enters the secret lab, via an elevator and confronts Aiken, accusing her that she is the reason behind all the terror attacks, by creating Psionics. Aiken pushes this accusation away, and proceeds to demonstrate her newest invention, the Brain circuit, which helps her channel the psionic abilities of another person using a virtual imagery of their brain. She uses Priscilla's brain and summons Sun monsters. After defeating them and destroying the brain circuit, Cain asks about the whereabouts of the Artifact that she discovered long back. She answers saying that it was stolen from her, by one of her associates Dr. Elijah Krebspawn. Aiken also reveals that Cain and Abel are her scientific creations, and they were indeed raised in Aiken Pharmaceuticals. Enraged with this fact, Cain attacks Aiken and a battle ensues. After a while Guards appear in the lab, making Cain escape from the facility with the help of Frost.
