His back story was as hazy as his science.
Daniel was born on the mainland (as there is a birth certificate for him) and was the son of Eloise Hawking and Charles Widmore, although he did not know the identity of his father (that was left blank on the birth certificate). This is the first unsolved mystery of this character: who was Daniel's real father?
We know that young Eloise and Widmore were co-leaders of a small Others fraction on the Island. Widmore wanted control of "his" island against any outsider, and Eloise seemed to be more focused on survival. How they both got to the island was unknown. But it seems they were both quite protective of it.
During their early adulthood, the time traveling Daniel appears on the island. Eloise shoots and kills "her son" then realizes her mistake. This sets off one of the most important background characters into action.
We know that both Eloise and Widmore left the island before the Purge. Widmore was banished by Ben because Widmore "violated the rules" by having a child (Penny) with an off-islander. Eloise's departure was not told. (She could have been part of the evacuation, or she may have left after killing her son in the time travel arc.)
It would seem that Eloise's sole goal in the series was to protect Daniel. After Eloise and Widmore's relationship soured, Eloise also changed Daniel's last name to Faraday so Charles could not find him. But we know how powerful Widmore was; he knew and found Daniel.
One could speculate that the falling out between Eloise and Widmore was about Daniel and his special abilities. Daniel had "time traveled" to the island. Widmore wanted to get back to the island and seize it as his own. What better means to do so than "time travel." Likewise, Eloise would want to save the time traveling Daniel from her own actions of killing him. As a result, Eloise may have needed to find a man who was a scientific genius. (Clue to last name: Stephen Hawking.)
Eloise needed to unlock the elements of space-time in order to correct Daniel's destiny. So she forced Daniel to give up music to study extreme theoretical science. So Daniel studied at Oxford, earning his doctorate at the youngest age on record. At that time, his girlfriend Teresa Spencer, was deemed to be a distraction. Soon after, Daniel started unauthorized experiments (funded by Widmore) involving time travel. He created a machine in 1996 that allowed a living creature's consciousness to travel through time. He tested it on a lab rat he named Eloise, which signifies an open hostility toward his mother and her constant pressure on him to succeed in this science.
During that same year, Daniel was visited by a stranger named Desmond Hume. Desmond claimed to know about the machine, Daniel initially believed that a colleague was playing a practical joke on him, but when Desmond mentioned "Eloise," Daniel's lab rat, he believed Desmond. In his lab, Daniel tested "the Numbers" Desmond supplied to him. He used the machine on Eloise, enabling her to unerringly complete a maze that she would not be taught how to run for another hour. Daniel's blackboard revealed his interest in the Kerr metric as part of his theory of time-transported consciousness. According to Daniel's theory, a being that undergoes time-transported consciousness must identify a "constant," something existing in both periods of time travel that can serve as an anchor for the being's consciousness; failure to find a constant results in instability of consciousness, and the resulting stress can lead to brain aneurysm and eventual death.
Daniel's success led him to ramp up his experiments. The experiment apparently resulted in Theresa becoming permanently mentally 'unstuck' in time, with her condition deteriorating to the point that she became permanently bedridden, in a coma-like state as a result of his experiments. (Widmore funded her care for her parents silence.) Soon after this accident, Daniel went to America. Daniel began to study at DHARMA. It seemed that Daniel started to experiment on himself, which wrecked his ability to connect with his own memory. He constantly wrote notes in his leather journal to remember.
But while in the United States, Daniel's mental state deteriorated to the point in 2004 where he is under the care of a woman (caretaker or some initially assumed a girlfriend or wife). When the news of Flight 815's crash, with film footage of the wreckage shown on the television, Daniel had a mental breakdown which he could not explain. When Widmore arrived, he told him that the wreckage was a fake. He told Daniel that the real Flight 815 had crashed on a "miraculous island," and offered him the chance to go there, promising that it would "cure" him. Several days later, Daniel was playing piano at his home, trying to remember the Chopin piece he was playing when he was ten, when he was visited by his mother. She persuaded him to accept Widmore's offer and go to the Island, assuring him that she would be proud of him if he did so. Daniel agreed to accept the offer.
Daniel brought several critical (we thought) elements to the LOST mythology. First, he brought with him science explanations for the island's mysteries. Second, he brought with him a window to the people pulling the strings behind the curtain (Eloise and Widmore, shadow villains). Third, he brought in intellectually naive character in the mix of amateur action heroes.
But Daniel's story is really messed up.
First, there are the paradoxes that cannot be put in their places. Young Eloise "kills" her adult yet unborn son on the island. This is a classic time travel problem that should have had radical results. Since Eloise has a son in the future, but kills him in the past, why would she "re-live" this pain by actually conceiving him in the future? Some could argue that an adult traveling back into time to meet their death is not a conventional paradox since Daniel was destined to die "someday," and this was the means of his own demise. But a secondary issue is that if Eloise knew Daniel was going to die on the island, why did she do everything in power after killing him to get him to study time travel and go on the trip to the island?
It would seem that Eloise "needed" Daniel to become a brilliant scientist in order to kill him on the island so her own fantasy sideways world dream family situation would come true. In Daniel's death on the island, Eloise could lead a normal, but rich life in the after life. It sounds insane, but that seems to be the whole motivation for the Eloise manipulation of both Daniel and Widmore.
So Daniel had a bounty on his head before he was even born. He was never going to have a real, normal, human life.
Second, if Daniel's theory of mental consciousness time travel is to be believed, was his research adopted by DHARMA to create the full transformation of physical time travel as demonstrated by the turning of the frozen donkey wheel? When Ben turned it, the island began "time skipping" but only with a few individuals. The idea of someone having a "constant" in real and skip times seems to be moot because people have connections in those worlds (i.e. parents, close friends, spouses, children, etc.). If the salvation key is consciously putting a mental image of a person in both time periods in your mind before you time jump, then that seems superficially a magic chant or spell and not science. (The ancient Egyptians Book of the Dead contained various chants and spells to help souls travel through the dangers of the underworld; perhaps Daniel's theory is like these spells.)
If Daniel was already mentally time tripping in the U.S., then why did he need to go to the island? The only explanation was that he needed to "die" on the island in order for his consciousness (some would call it his soul) to reach Eloise in the after life, so she could repress his memories and not "move on" through the next level of existence. This would presuppose that the island is actually an inter-dimensional gateway between the worlds of the living and the dead. For some unknown reason, people dying on the island have their memories repressed when their souls reach the after life. It is sort of a dream state in the sideways world where people, like in dreams, try to subconsciously work out real world problems through various fantasies.
If the island allowed full body and mind time travel, then there should be no "mental" only time travel side effects, such as the nose bleeds and death that happened to Charlotte. Daniel was nose bleeding before he was shot, so he was going to also die even though his "constant," Desmond, was on the island and in his original time period. So, since there are two sets of rules at play in one time travel sequence, no clear conclusion could be made on what is truly happening on the island. If Daniel's theory is the control, then everyone on the island was time tripping, in a dream like state, in a forehell to the sideways world. If DHARMA and the island's FDW full time travel machine was the control, then only when you met yourself in both time frames could you be paradoxically removed from existence. But that did not happen to Charlotte or Daniel. In face, some time trippers were reincarnated.
So it gets back to the big mystery of why, throughout all the trauma and manipulation of Daniel's life, did Eloise want, need, desire or demand Daniel to be on the freighter, come ashore, and be killed by her younger self? The only viable answer was that guilt was making Eloise dream up these actions.
For the symbolism of a young woman killing her "adult" child could represent a psychological trauma of Eloise's young life, such as an abortion. If she aborted "Daniel" or lost him during pregnancy on the island, then the series could evolve around a troubled young woman's lost mental state of delusions and fantasies of having the perfect life with her dead fetus. Eloise could have been haunted by her actions so that she could have been institutionalized as a mental patient. As creepy as that may seem, it allows for the fact that science, sci-fi and any other rational explanations for series events be immaterial and irrelevant. The sole factor was keeping her dead child from realizing that his own mother killed him.
