Is the secretary a spy? He had them bugged with listening devices. He seems wary about his position so I guess he left his family to be free from pressure or he was used as a spy to win over this "project" for his family. OR he's worried for his boss cause the ML is sketchy.
Also, why doesn't the MC just have the baby and make a contract with the ML that if he does something stupid or if he tries to take over, his parental rights will be terminated or something.