Complex sentence: The adult Franklin sees X-Factor's skyscraper-like extraterrestrial Ship they had obtained from Apocalypse several months earlier which also serves as the team's Manhattan headquarters, and perceives it does not belong in his memory of the past, and thus he causes it to vanish.
Split into simpler sentences: The adult Franklin sees X-Factor's skyscraper-like extraterrestrial Ship they had obtained from Apocalypse (several months earlier), which also serves as the team's Manhattan headquarters. He perceives it does not belong in his memory of the past, and thus he causes it to vanish.