This theory is HIGHLY speculative, and the series most likely won't pan out this way, but I just think this would be a great way for the series to go out, based on what we already know.
The Island is a giant alien spacecraft used as a "Trial" of worthiness but a distant and sophisticated race of alien beings. This alien races sends two of their kind on this space vessel and exile them onto another planet where they must undergo a competition/trial of sorts. The two beings brought to Earth were Jacob and (for lack of a better name) Anti-Jacob.
Now these two were tasked with landing the ship on Earth and masking it by allowing Earth flora and wildlife to grow on top of the ship. Their goal was to follow the ever-evolving human race and to cultivate a society similar to their Alien race. For example, their race placed a set of morals and rules that they would like to spread throughout the galaxy. The "Trial" not only puts Jacob and Anti-Jacob to the test of trying to cultivate a society similar to their own, but also would improve the life of humans on Earth.
Jacob and Anti-Jacob are not allowed to kill or hurt each other directly. The rules are that they can only try to convince humans through persuasion. They have many "supernatural" abilities such as healing people, traveling through space-time, and manifesting themselves in (unburied) dead human corpses.
They influence societies throughout the millenia, often manifesting themselves as "gods" (a la Stargate). They particularly have an influence on Egyptian culture, of which was perhaps the most promising trial. They perhaps brought certain people to the Island throughout the centuries who were deemed worthy and could follow the Alien code of conduct.
However, at one point it seems a conflict emerges between Jacob and Anti-Jacob. Their efforts are futile and cannot seem to cultivate an adequate Alien-society. So, one day Jacob brings a new group in from the Black Rock ship. Through some course of events, Jacob manages to trap Anti-Jacob in a cabin, limiting Anti-Jacob's powers to manifesting himself as a cloud of black smoke and manifesting in dead corpses. However, Jacob also disappears (perhaps is also imprisoned in the statue?). Thus, Anti-Jacob begins telling people on the Island he is Jacob and starts building his society = The Others.
The Others are thus the followers of Anti-Jacob unknowingly. Meanwhile, Jacob has plans of his own and secretly starts recruiting a new group of people to come to the Island to overthrow the Others. The main people in this group are Hurley, Jack, Jin, Sun, Kate, Sayid, and Sawyer. Jacob believes through this group, he can finally create the perfect trial. Not through bringing PERFECT people onto the Island, but through bringing FLAWED people onto the Island and allowing them to make their own mistakes, discover their own destiny, and choose the alien code of morals themselves.
Thus, the "disagreement" between Jacob and Anti-Jacob. Anti-Jacob believes that only through sheer fear (black smoke, capturing people in the night, etc.) can they force the society on the humans. Jacob believes otherwise and has faith that a group of flawed humans have the potential for good and can end the "Trial".
Through the series of events through the 6 seasons, we see the characters undergo many changes. The producers have stated that the characters were always the main crux of the story. So, in the end, somehow I believe Jacob will somehow get Jack and the others to attain control of the ship and transport them to the alien world at the end of the series.
There will be a final dilemma in that they find out the human race is doomed to extinction. There is an impending disaster that will destroy the human race and everyone is trying to get the ship to just leave. Jacob however still wants his group of worthy humans to take command of the ship.
The end of the series would involve Widmore battle to gain control of the Island, possibly in alliance with Anti-Jacob. Meanwhile, Jack finally confronts his father, manifested with Anti-Jacob but retaining the memories of his father. There will be a final battle between Jack/Christian(Anti-Jacob) and Ben/Widmore. Anti-Jacob, Ben, and Widmore proably die, but Jacob sacrifices himself to save Jack's group.
The Earth-ending incident begins and Jack is forced to activate the ship controls. It would be a fantastic ending to Lost to see Jack and whoever survives to take control of the ship and see them embark of a journey through space-time to reach the Alien society to achieve their reward of an eternity of peace and acceptance in the galactic community as the only worthy survivors of the human race.
Thus, the series ends with Jack and his crew lost in the reaches of space-time on a fantastic voyage toward mankind's ultimate destiny.
LOST
The Island is a giant alien spacecraft used as a "Trial" of worthiness but a distant and sophisticated race of alien beings. This alien races sends two of their kind on this space vessel and exile them onto another planet where they must undergo a competition/trial of sorts. The two beings brought to Earth were Jacob and (for lack of a better name) Anti-Jacob.
Now these two were tasked with landing the ship on Earth and masking it by allowing Earth flora and wildlife to grow on top of the ship. Their goal was to follow the ever-evolving human race and to cultivate a society similar to their Alien race. For example, their race placed a set of morals and rules that they would like to spread throughout the galaxy. The "Trial" not only puts Jacob and Anti-Jacob to the test of trying to cultivate a society similar to their own, but also would improve the life of humans on Earth.
Jacob and Anti-Jacob are not allowed to kill or hurt each other directly. The rules are that they can only try to convince humans through persuasion. They have many "supernatural" abilities such as healing people, traveling through space-time, and manifesting themselves in (unburied) dead human corpses.
They influence societies throughout the millenia, often manifesting themselves as "gods" (a la Stargate). They particularly have an influence on Egyptian culture, of which was perhaps the most promising trial. They perhaps brought certain people to the Island throughout the centuries who were deemed worthy and could follow the Alien code of conduct.
However, at one point it seems a conflict emerges between Jacob and Anti-Jacob. Their efforts are futile and cannot seem to cultivate an adequate Alien-society. So, one day Jacob brings a new group in from the Black Rock ship. Through some course of events, Jacob manages to trap Anti-Jacob in a cabin, limiting Anti-Jacob's powers to manifesting himself as a cloud of black smoke and manifesting in dead corpses. However, Jacob also disappears (perhaps is also imprisoned in the statue?). Thus, Anti-Jacob begins telling people on the Island he is Jacob and starts building his society = The Others.
The Others are thus the followers of Anti-Jacob unknowingly. Meanwhile, Jacob has plans of his own and secretly starts recruiting a new group of people to come to the Island to overthrow the Others. The main people in this group are Hurley, Jack, Jin, Sun, Kate, Sayid, and Sawyer. Jacob believes through this group, he can finally create the perfect trial. Not through bringing PERFECT people onto the Island, but through bringing FLAWED people onto the Island and allowing them to make their own mistakes, discover their own destiny, and choose the alien code of morals themselves.
Thus, the "disagreement" between Jacob and Anti-Jacob. Anti-Jacob believes that only through sheer fear (black smoke, capturing people in the night, etc.) can they force the society on the humans. Jacob believes otherwise and has faith that a group of flawed humans have the potential for good and can end the "Trial".
Through the series of events through the 6 seasons, we see the characters undergo many changes. The producers have stated that the characters were always the main crux of the story. So, in the end, somehow I believe Jacob will somehow get Jack and the others to attain control of the ship and transport them to the alien world at the end of the series.
There will be a final dilemma in that they find out the human race is doomed to extinction. There is an impending disaster that will destroy the human race and everyone is trying to get the ship to just leave. Jacob however still wants his group of worthy humans to take command of the ship.
The end of the series would involve Widmore battle to gain control of the Island, possibly in alliance with Anti-Jacob. Meanwhile, Jack finally confronts his father, manifested with Anti-Jacob but retaining the memories of his father. There will be a final battle between Jack/Christian(Anti-Jacob) and Ben/Widmore. Anti-Jacob, Ben, and Widmore proably die, but Jacob sacrifices himself to save Jack's group.
The Earth-ending incident begins and Jack is forced to activate the ship controls. It would be a fantastic ending to Lost to see Jack and whoever survives to take control of the ship and see them embark of a journey through space-time to reach the Alien society to achieve their reward of an eternity of peace and acceptance in the galactic community as the only worthy survivors of the human race.
Thus, the series ends with Jack and his crew lost in the reaches of space-time on a fantastic voyage toward mankind's ultimate destiny.
LOST