In "The Scientist", Malcolm continues to privately confront Moira at the Queen household, insisting that she owes her life to him once again after he helped her in her trial. Determined to play a part in his daugher's life, Malcolm demands that Moira tell Thea of her true parantage. Moira refuses; to prove her unwillingness to compromise, and that she will no longer tolerate having to constantly fear Merlyn, Moira contacts Ra's al Ghul and the League of Assassins, informing them that Malcolm is alive.
She reveals this to Malcolm, advising that he run since his Undertaking was a betrayal to the League's code of honor, and that Ra's al Ghul was delighted to learn of Malcolm's survival, so that he could personally kill Merlyn.