Sheldon and Amy are surprised to find that Wil Wheaton's new Professor Proton show is actually very entertaining and that Wil had Howard on as a guest. On Howard's suggestion, Sheldon apologizes to Wil, mending their friendship, and tells him he wants to be on the show; but Wil asks for Amy. Sheldon tells her to do it, but she says she often doesn't do things to avoid upsetting him. Sheldon is horrified when he realises how selfish he has been, especially when he finds out that the men do the same for him. Sheldon encourages Amy to go on the show to inspire girls to pursue science while trying to control his obvious jealousy for her. Meanwhile, Leonard writes a book about a physicist that solves a murder, the protagonist Logan Dean is based on himself. Bernadette points out Logan's mean boss Illsa is similar to Penny, who thinks it is based on Bernadette, though Leonard does not correct her. However, Bernadette tells Penny the truth, upsetting her and making her mad at Leonard. After calling his mother for advice, Leonard learns that Illsa is actually like her; but abandons the book when he realizes he wrote romantic tension into the relationship between the characters.
^ "Editor's Note: With final Monday ratings in, The Big Bang Theory has now reached a new series high in viewers (16.32m) and was the night's top program in adults 18-49 (5.9/15), up a tenth from this morning. -- "Two and a Half Men" Soars to Its Best Adult 18-49 Rating in Three Years". CBS. March 9, 2010. Archived from the original on January 8, 2014. Retrieved January 5, 2013.
"The Locomotive Manipulation" is the first episode in which Sheldon initiates a kiss with Amy. Although initially done in a fit of sarcasm, he discovers that he enjoys the feeling. Consequently, Sheldon slowly starts to open up over the rest of the season, and starts a more intimate relationship with Amy. However, in the season finale, Sheldon leaves temporarily to cope with several changes and Amy becomes distraught. However, in "The Prom Equivalency", he hides in his room to avoid going to a mock prom reenactment with her. In the resulting stand-off, Amy is about to confess that she loves Sheldon, but he surprises her by saying that he loves her too. This prompts Amy to have a panic attack.
Sheldon's childhood friend from Texas, Tam, is visiting the university with his son. Sheldon does not want to see him and the others wonder why Sheldon has never mentioned Tam. Tam is unaware Sheldon is angry with him, thinking they just naturally drifted apart. Sheldon's brother George does not know the reason either. Sheldon eventually reveals Tam promised he would move to California with Sheldon, but then got a girlfriend and stayed with her, leaving Sheldon feeling abandoned. Tam and Sheldon make up and Sheldon has Leonard take Tam to the airport. Meanwhile, Penny and Bernadette want to get to know Anu, impressed by her connections in the hotel industry. They tell her embarrassing things about Raj and wonder if they can go out with her again after Raj confronts them.
When Leonard receives a braggy Christmas letter from his brother, he feels bad about how little he and Penny have achieved in the past year. Leonard wonders if he and Penny should be thinking about the next step after two years of marriage, like buying a house or having a baby. Penny tells him she wants to do all those things someday, but she has a bunch of stuff she would like to do first.
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