(The Sex, Lies and Negatives episode) Entry from Tom’s Diary:
There’s a certain anonymity to the city, a certain coldness, distance—I remember sometimes trying to shake that feeling off.

It seems inevitable that Tom would run into others who have been affected by Organization tactics in his investigation of the conspiracy.

A method of memory triggering and enhancement used by the Organization to break particularly difficult subjects. Flash regression requires a controlled environment.

Dr. Moen, an academic rival to Dr. Bellamy, uses an advanced system of drugs, pulsating lights, the power of suggestion, stage scenery, virtual reality and actors to break his subject’s spirit.

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An award-winning photo-journalist specializing in war-torn and poverty-stricken areas, Tom made the mistake of taking a photograph of a private military group dressed as US army soldiers secretly executing four young rebels deep in the jungles... Read more

The Organization (which is never referred to as anything else), is a privately-funded research group with extensive political and military ties but no particular loyalty.

Tom’s psychiatrist when he is first taken to Calaway Psychiatric Hospital for kidnapping Alyson after he is erased. Bellamy is working for the Organization, he also appears to be working with Alyson.