Sorry if this 'interpretation' has already been laid out, I didn't have time to read through all of them.
I seem to be a mutant, because I 'got' the plot the first time through. It's just told in a very strange way, and I think the mood becomes a distraction, but the story is clear as daylight imho.
One of the keys is in the 'mission statement' / 'advertisement' for Arboria at the beginning of the movie. Basically it says they have developed these science based therapies designed to assure the subject achieve enlightenment and inner peace. That is clearly not what happens in the film, and Arboria is most definitely not the psychic spa Dr. Arboria bills it as. 'Energy Sculpting' is the fictional part of the list of therapies. I'm guessing it is referencing a field created by the pyramid room.
Anyways, the plot itself is very simple. Chronologically it would be something like this. At some point in the 60s Dr. Arboria and Barry began developing the technologies that would be used at the institute using themselves as the trials. Arboria and his wife conceived a child within the Energy Sculpting field and the result was that the child was born with ESP. This part is conjecture, but it fits. Barry offers himself as the guinea pig for the full course of the Arboria protocols. He is indeed enlightened (looks into the eye of god as he says), and comes out and kills Arboria's wife in a fit of insanity.
Arboria is probably already down the path of drug addiction at this point, while Barry has been profoundly changed by his experience. So they decide to continue and hide the death of Mrs. Arboria. Arboria hides himself away in a dark room, oblivious to what is going on around him, entrusting Barry with the running of Arboria and the care of his daughter.
What is discovered when the Nurse, Margo, finds the journal is that Barry has been engaging in profane and twisted human experiments at Arboria. When Barry finds her cigarette ash in the drawer the journal was hidden in, he hatches a plot to silence her so she can't tell Arboria, or the outside world, what he has been up to.
Barry takes some acid while trying to figure out what to do. He tells Margo about the picture to set her up. He knows she will act like a bitch towards Elena, and at that very moment he dials down the field that inhibits Elena's powers and Elena kills Margo. Barry seems to kill when he's on drugs a lot.
Since Nyle and Margo both have lives outside of Arboria, presumably, Barry must realize at this point that he is screwed and eventually Margo's disappearance will bring the authorities to the institute. His mental erosion quickens and he begins to kill off everyone connected to him and Elena.
My question is... was he out to kill Elena, or did he feel that they... two children of the Arboria protocols... were meant to be together? Hopefully Cosmatos has a sequel planned! Not only a cool and twisted little story, but the performances were top notch.
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