The real argument is, were they one Universe that split, or is there a multiverse of infinite parallel universes out there? The type of world presented completely changes the type of perspective for analyzing all of this.
My take is that an original timeline featured the damage but no hostilities between the Universes - Peter (on the side of Red) and Olivia (on the side of Blue) represent the joining of the two sides to solve the problem of the accidental damage. With no death or kidnapping, there is no war - and the saving of the Universes was so momentous that the Observers were there to watch - but not in the first timeline, but in the *second*.
Original timeline: 1985 - damage caused. 2000s - Fringe events lead the two sides to discover each other and unite. 2026 - the machine is built, designed to fix the damage and bridge the universes and stabalize the fabric of reality.
Only they are too late. The wormhole is formed. The Universes are destroyed. Walter and company send the machine back in time via the wormhole and set up all the First People stuff. The idea is that if they can find the *machine* back in the 2000s, rather than building it onward to 2026, they can stop the damage *before its too late*. So they set it up so their past selves can find the information they need to assemble it. The timeline is rewritten, and the machine is destined to be found and used in a positive way. September comes to watch the momentous occaision.
And screws it all up. And causes a death, a kidnapping, a war.
Positive tilts towards Negative. Alliance to War. Create, to Destroy. The machines balance is tipped due to the hostilities. The un-ending loop begins.
It's a good argument, but I think even their general relativity between the pairs suggests a special relationship, outside of iterations....but it might be one of those things that never gets fully answered, because in the scheme of things knowing the exact beginnings may not be as important as finding a solution to balance. It just depends on what the writer's final answers will be.
Technically, both pairs of parallel universes each have a machine which suggest that both then loop back to previous pairs, but I am still inclined to think that one timeline created another, they found a way to connect themselves in 'age', and this caused them to both loop together...
Either Pinkner or Wyman did state that these universes (red and blue) are "mitosis of the universes" -which clearly is represented with the apple glyph. --I think this is also why "6B" is somewhat important episode, because we see that people (Rosenkranzt) with strong feelings have to find a way to 'let go' in order to stop the chaos and learn the truth.
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To also go with what you just wrote in your latest post, PsychopathicROC
I think it depends on what any of us think a soul is. I mean on one hand you can say the souls are splitting apart into new souls, and/or you can say they have to do this in order to progress and therefor manifestation of "a soul" = survival of the fittest. (Dharma/Karma -Brahman/Buddhism)



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