50) [1st GEN] Analysis of Generation I, Part 5/5: Red, the Champion Despot

After conquering the Elite Four, Red became its leader. However, lacking understanding of things like human emotion, he was horribly unfit for the role of leader. Red became known as a despot, inspiring the hatred of all of Kanto. Under his leadership, the skills of the Elite Four atrophied. Red was blind to the rumblings of rebellion throughout Kanto, but was not blind to the fact that his skills as a trainer were growing dull. To rectify this, he planned a hiatus during which he could train alone on Mount Silver.
At the time that the Elite Four's skills were atrophying, the Kanto gym leaders continued to gain strength. Eventually, Red was the only member of the Elite Four who was stronger than any of the Kanto gym leaders, and when Red left for Mount Silver, the Kanto Gym leaders staged a rebellion. Lorelei and Agatha were either killed or fled into hiding. Bruno, being among the more benevolent rulers of the Elite Four, was allowed to stay. The Kanto gym leaders were not able to defeat Lance's powerful dragons, but after seeing Agatha and Lorelei disappear/get killed, Lance admitted that he had no desire to see the current system continue. The Kanto gym leaders allowed Lance to stay as league champion, and stationed one of their own, Koga, on the new Elite Four. (Koga's daughter, Jasmine, replaced him in the Fuchsia City gym.) Red, meanwhile, continued his training atop Mount Silver. He remained in total isolation until three years later, when he received his first human visitor: a young boy named Gold.

49) [1st GEN] Analysis of Generation I, Part 4/5: Emperors of Kanto

The Kanto region is controlled by four elite emperors, otherwise known as the Elite Four. Kanto is governed under what is essentially a feudal system, with local rulers residing in "Gyms," surrounded by loyal followers/apprentices. The Elite Four is aware of the possibility of a trainer raising Pokemon even more powerful than their own. To prevent such an individual from attempting to stage a violent revolution, the Elite Four has extended a generous offer: anyone who is able to beat them is allowed to join their ranks. Many trainers dream of becoming rulers of the world, but few possess the skill needed to make it even past the first few gyms.

48) [1st GEN] Analysis of Generation I, Part 3/5: Experience Gain

When Pokemon participate in battle, an adrenaline-like response kicks in, allowing the use of combat abilities like summoning lightning or breathing fire. As this happens, Pokemon exude large amounts of radiation. Their adrenal response also leaves them susceptible to radiation exuded by opposing Pokemon during combat. This radiation causes Pokemon to mutate, and the extent of these mutations is proportional to the strength of the opponent. Face a terrifyingly-strong opponent, and high radiation levels and increased susceptibility will lead to rampant mutations. Weaker foes, conversely, will have little impact on a Pokemon's physique.
These mutations cumulatively add to a Pokemon's strength, and sometimes manifest themselves in the form of increased abilities or appendages. For example, Bulbasaur might sprout some vines, allowing it to use the move Vine Whip. Other times, the mutation is more drastic, causing a Pokemon to mutate into an entirely new form. (Also known as evolution)
Although "leveling up" is the usual way for Pokemon to evolve or learn new skills, there are also artificial stimulants that can be used to enhance a Pokemon's combat abilities. You can call them "performance enhancing drugs" if you like, but "Technical Machine" also works. Evolution stones are just high concentrations of chemicals that cause certain Pokemon to mutate.

47) [1st GEN] Analysis of Generation I, Part 2/5: Pokeball Mechanics

A Pokeball leaks radiation proportional to the mass of the Pokemon contained within, and the amount of radiation that the human trainer can safely withstand is proportional to their own body mass. This is why many young trainers like Youngsters and Lasses have lightweight Pokemon like Rattata and Jigglypuff, while heavy Pokemon like Geodude and Onix are always carried by a large and muscular Hikers. Of course, the radiation of those balls adds up, so most people are only capable of carrying three or four Pokeballs at a time, if that many. Gym leaders, being in a static location, don't have to carry their Pokemon on their person, and not being in constant close proximity to their Pokeballs, they can usually get away with using up to five. Red and Blue, being genetically engineered superhumans, have the strength to carry up to six Pokeballs at a time.

46) [1st GEN] Analysis of Generation I, Part 1/5: Origin of Red and Blue

After his work on the Mewtwo project, Professor Oak made multiple attempts at bioengineering a human clone. The first successful attempt used a 650 nanometer laser, which produced a subject that, while biologically human, lacked human emotion. Professor Oak made a second attempt using a 475 nanometer laser. This produced a more refined, more "human" subject who could easily be mistaken for a perfectly ordinary and rambunctious young boy. The first subject was implanted in a surrogate mother living in the town of Pallet, while the second subject matured entirely in Oak's laboratory. The subjects were named "Red" and "Blue" after the colors of the lasers used in their creation. Postpartum, the surrogate requested to raise subject Red. Professor Oak obliged, and chose to raise subject "Blue" as his own grandson.

45) [HISTORY] Mass Extinction

 Credit goes to ninja1121 for submitting this theory.