<Snipped quote by Vandy>
Why not? Plenty of adaptations have Lex attempting to harness Superman's powers to his own end before coming to hate him. I don't think it's out of character at all.
Either way, sheets aren't gospel. They're made in a vacuum before any of the rest of the game is given flesh. Nobody is going to break a sweat if you, with the consent of whoever plays Superman, go against a minor detail in your sheet.
Lex had always hated Superman because he is the one man in Metropolis more powerful than him. Sure in the beginning he would have tried to manipulate him but now we're four years in. Plus if Lex built the Justice League he sure doesn't want Supes over shadowing him on his own super team. Lex is incapable of being second place to an unhealthy and obsessive degree. Superman is the one person he really thinks overshadows him.
If the invitation comes from Cap that'd be fine but Lex certainly wouldn't be happy about it. Lex has been willing to work with Superman only in extreme circumstances and is on the Justice league in the comics right now so he can undermine Superman's own team. He doesn't want that to happen to him.