Some fans have theorized that the main characters might actually suffer from schizophrenia, hence their behaviour about wanting to achieve their missions and kill each other one moment, and fraternizing and bedding each other the next.
The talkie shorts have several very different portrayals on the morality and competence of its two main characters. The Æon on "Isthmus Crypticus" and "Thanatophobia" is moral up to a point, for while she very much indeed partakes in her anarchistic terrorism she goes to great lengths to help others she perceives as being manipulated or trapped. Meanwhile the Æon on "Utopia or Deuteranopia?" is intensely amoral and has no real objectives besides screwing with Trevor. Trevor, too, can go from a justifiable Tyrant ("Utopia or Deuteranopia?") to an egotistical idiot obsessed with control ("Isthmus Crypticus"). Whether or not either is driven by sincere belief in order or chaos and see their counterparts as mere playthings, or whether everything they do is part of their BDSM-ish game, also changes constantly between episodes.
Designated Hero: Æon is the main character of the series, but some of her actions will make you question her morality, most poignant would be her acts of terrorism, using her allies (without telling them) to achieve her goals, getting them upset when they find out they've been had, and not being apologetic about it. The only indicator that Æon's a "hero" at all is that Trevor, her rival, is set up as an Evil Overlord from the get-go.
Les Yay: Between Æon and Una. No longer the case at the end of the episode.
Complete Monster: Vice Chairman Orin Goodchild is Chairman Trevor Goodchild's treacherous younger brother and the Big Bad. Ruling over a sterile society with his brother, created from a vaccine Trevor used to save humanity 400 years ago, the duo clone people and fake pregnancies to cover up the fact. Although Trevor intends to find a cure to the infertility, Orin just wants to be an immortal dictator, uncaring that each generation of clones suffer from progressively worse nightmares. Orin feeds information to a resistance ground in the hopes they will assassinate his brother and, when this fails, directly stages a coup. Taking power, Orin tries to have every woman who became naturally pregnant killed.
Hard-to-Adapt Work: While the movie is not well-liked among fans of the show, the entire format of the show makes it hard to see what the filmmakers really could have done with it. The show has very little plot, not a lot more characterization, and doesn't lend itself to a feature-length format. That's not to say there was nothing the filmmakers could have done better, but there was a good reason this time for the continued low quality of live-action adaptations.
Inferred Holocaust: At the end of the film, people who have lived 400 years within Bregna decide to leave the city for the untamed jungle. And even with fertility reoccurring, there is no guarantee that everyone of child-bearing age is fertile. (In fact, it was only about 20 women in the whole city who had become pregnant in Goodchild's sample group.)
Video Game:
Complete Monster: Oren Goodchild, evil brother of Chairman Trevor Goodchild, yearns to keep his grip over the city of Bregna permanent. Acting out as his brother's muscle as the two rule over the city as its dictators, Oren, upon realizing that Trevor desires order by shutting down the city's replication factor, tries to sabotage all of Trevor's efforts in order to keep the status quo, even creating the Grand Dreadnought against his wishes as a way to wage war against the Monican resistance. Declaring himself emperor after having Trevor assassinated, Oren commences his genocide campaign against the Monicans by laying waste to all of Bregna so that nobody can stop his eternal reign of terror.
