Well the terraforming machines and battle over Metropolis for starters.
But why does it matter? Xenophobia is a very common trait and even over half of the people interviewed on the news were against Superman too. Lex isn't alone in distrusting Superman, just singularly capable of doing something about it.
This does not explain why he wants to kill Superman and creating a bio-weapon that could potentially do more harm than the Superman vs Zod fight. Not to mention the fact that he does not explain why he doesn't trust Superman much less why he hates him and much less why he is planning all of this in the first place. There is no scene of Lex showing why he distrusts Superman, none! Zero, zip, nada. There is no reason for his actions at all.
"But why does it matter?" Why are you asking this when you said you cared about motivation? Or did you only care about motivation regarding Cap in Civil War?