Lex is committing murder. He and Lana are lying to each other. He says that he has no secrets. She says, truthfully, that she would never hurt the man she loves. It is a lucky coincidence that Lois knew the man whom Lex has transformed into a super soldier. The coincidence is partly explained by Lois' father being General Sam Lane (who has only appeared once so far in Smallville).
Martha becomes a US Senator, as arranged between Lionel and the Governor. Because of his powers, Clark can address Lionel as an equal. Only one more episode in Season Six. I do not think that this season will end with a major catastrophe but the ending will be yet another turning point.