* The Harvesters. Giant robots that may as well be {{Eldritch Abomination}}s due to their function and unstoppability, plus that their primary ships in the fleet [[TheWormThatWalks consists of smaller cube-like robots that combine to form larger ships and weapons]], as well as the fact that they [[SerialEscalation upgrade themselves]], making them even [[FromBadToWorse deadlier]].
** Made even worse that they're sent by the humans remaining on Earth to go out to colonized worlds and "harvest" the inhabitants, i.e., killing them and ripping them apart for the organs so the people on Earth could use them.
* The handful of time's we see combat with the harvesters on foot, its implied they don't even wait to harvest people until the fighting is over and bots perform collection mid-combat in the presence of the unfortunate combatant's comrades.
* Meia's claustrophobia. It's particularly jarring given how lighthearted the series was up to that point.
* The Final Harvester ship, which according to Rabat, its purpose is to [[YouHaveOutlivedYourUsefulness destroy planets no longer needed by the harvest fleet]]. It also contains the Paksis that was left on Earth, which spoke through the body of a young boy, which after [[NiceJobBreakingItHero Hibiki mocked the Paksis]] for its stubborn views, [[SuicidalCosmicTemperTantrum it went insane and attempted to destroy the entire galaxy with an out of control wormhole]], with the end result that Super Vandread barely makes it out alive thanks to Nirvana's own Paksis Pragma protecting it with a net-like shield.
* The image of what earth as it is now, it hardly even resembles a terestrial planet let alone anything resembling what we associate with it. It presses the point that there really isn't worth left saving from humanity's "home" let alone anything justifying the harvesting of the colonies intentionally setup for the purpose of organ replacement for the souless immortal "earthling" humans.