That's not it, the guy in question stated you get dark side points for the intercom call that is important. That being the first intercom call, he says he did not select the dark side option, and he eventually gets the companion missions unlocked. I did select the dark side option and I do not have the companion missions unlocked. The intercom thing is not able to be missed, that conversation in question is the choice between keeping or telling her secret. If the conversation were able to be missed, you would not be able to go to the council, because there is nothing to go there for. Since you could of just as likely kept her secret.