<P> Brennan begins to feel both dissatisfaction and discomfort with her work toward the end of the fifth season . She also sees some futility in her work, stating that no matter how many killers they catch, there will always be more . To help her gain new perspective, she later decides to head up an anthropological expedition to Indonesia for a year to identify some ancient proto - human remains, after mulling it over during the episode . However, 7 months later, she and everyone else return to D.C. in order to save Cam's job, and they all decide to stay . </P> <P> As season 6 progresses, Brennan must confront her feelings for Booth, whom she rejected in the 100th episode from the previous season . Having returned from 7 months of introspection, she has come to terms with her romantic affection towards him, even admitting that she regretted not having given them a chance together, midway through the season . However, Booth returns from Afghanistan with a new love interest, war correspondent Hannah Burley, whom Brennan befriends . When Hannah rejects Booth's marriage proposal, Brennan must help him through the emotional fallout . </P> <P> In the second to last episode of season 6 Booth and Brennan had sex, consummating their relationship, and it is revealed in the last few moments of the season finale that as a result, Brennan has become pregnant, with Booth the father . Throughout the episode ("The Change in the Game") Brennan has been seen asking Angela questions and making comments that make her seem excited and apprehensive; when she sees that Booth is happy with the news, she also seems overjoyed . This reflects her earlier desire to become a mother, circa season 4, as well as her desire that Booth be the father of the baby . </P> <P> In the Season 8 episode "The Shot in the Dark", Brennan is shot while working in the lab late at night . While undergoing emergency surgery, she experiences a vision of meeting with her deceased mother, Christine Brennan . Initially dismissing this as a hallucination, Brennan experiences several more visions throughout the episode . During these discussions, it's revealed that Brennan's hyper rationalization originates from the very last piece of advice her mother gave to her (before going on the run) which was to use her brain instead of her heart . While that advice enabled Brennan to survive all these years, the vision of her mother explains, it's now time for Brennan to do more than just survive . </P>

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