Editing ReBoot (section)

=== Season 3 ===
Initially, Mainframe thought they would follow up the second season with a film. The treatment was called ''Terabyte Rising'' and was to include flashbacks to the destruction of Mainframe's Twin City. This was dropped but much of it would be used for the fourth season.<ref name="sittingonanatomicbomb.com"/>

The show's third season exhibited a marked improvement in modeling and animation quality due to the advancement of Mainframe Entertainment's software capabilities during the time between seasons. Subtle details, such as eyelashes and shadows, as well as generally more lifelike polygonal characters, were among several visual improvements. The show's target audience shifted to children aged 12 and older, resulting in a darker and more mature storyline.<ref name="animag"/> After severing ties with ABC following the second season, the show reached a greater number of households through syndication.<ref name="takeone97"/>

Enzo, freshly upgraded into a Guardian candidate by Bob during the Web incursion, defends Mainframe from Megabyte and Hexadecimal, with Dot and AndrAIa at his side. When Enzo entered a game he could not win, he, AndrAIa, and Frisket changed their icons to game sprite mode and rode the game out of Mainframe. The accelerated game time resulted in Enzo and AndrAIa's aging. Subsequent episodes follow adult versions of Enzo and AndrAIa, who are now in a romantic relationship, as they travel from system to system in search of Mainframe. The older Enzo adopts the name "Matrix" (his and Dot's surname), carrying a weapon named "Gun" and Bob's damaged Glitch. The time spent in games and away from Mainframe hardened both Matrix and AndrAIa: Matrix developed a pathological hatred of viruses, and grew into a muscular, shoot-first-ask-questions-later antihero, while AndrAIa turned into a level-headed warrior. As the season progresses, Matrix and AndrAIa are reunited with Bob and the crew of the ''Saucy Mare'' and return to Mainframe, which has been almost completely destroyed by Megabyte and his forces. The group reunites with Dot and the resistance, then heads to the Principal Office for a final battle with Megabyte. Megabyte is defeated by Matrix, but not before Megabyte's handiwork causes the system to crash. All final problems in Mainframe were dealt with by The User restarting the system, setting everything right and restoring everything as it was again for the protagonists, with one major exception: younger and older Enzo now exist simultaneously, as Matrix's icon was still set to "Game Sprite" mode and was not recognized properly by the system when it rebooted, so that the system restored a copy of his younger self. The season concludes in a musical production put on by the binomes recapping the past two seasons plot events.