Clonk is Pascal from Nier Automata
Yes.
And Annie's swords in Ion are the YoRHa swords from Nier: Automata.
And the Exit Portals are Nia's Chakrams from Xenoblade Chronicles 2.
And the Praetorian's gun from Ion is the Sunshot from Destiny 2.
And Luna's costume in Red Herring is Triss Merigold's outfit from The Witcher 3
And the Aliens from Andromeda are the Xenomorph and Facehugger from Alien franchise.
And Luna's summons are Pyramid Head from Silent Hill and The Twins from Atomic Heart.
And the monster statue in the Collector's house is the Demogorgon from Stranger Things.
It's pretty much deliberate at this point (or proper use of mods given that most assets from HS2 are just modded assets from other games/anime/movies/series).