I thought maybe Brainiac was pulling Lane's strings. But what if it's actually Luthor. Pete Ross signed the bill that set up Project Patriot or whatever it's called. THat means it was probably created under Luthor.
Lane's probably a clone created after he saw how messed up Lois was by his death. And maybe Cat was brainwashed while she was working for him, to at least be more suspicious of Kryptonians.