In season 3, Fiona begins to grow disenchanted with Michael and his obsession with getting back into the spy game. She eventually becomes so fed up with him that she plans to return to Ireland. At that time, her brother Sean arrives to help her when she is targeted by an old nemesis from her past, a vicious explosives-maker named O'Neill who abducts Fiona and plans to return her to Europe to auction her off to some of her "old associates", who will certainly torture and kill her. When Michael and Sam stage a rescue, she is shot in the arm and leaps into the ocean, where she falls into unconsciousness. Michael pulls her out of the water and upon regaining her senses, she is forced to remain in Miami, as Michael's cover is blown and neither he nor she can ever safely return to Ireland. They have another sexual encounter at a hotel later in the season as Michaels way of apologising for not realising how important she is to him sooner.