Sheldon and Amy struggle to choose a best man and maid of honor from their friends. They secretly decide to test and score them, allowing everyone to have an equal shot at either role. Once the gang finds out, none of them apart from Bernadette and Stuart want to be in the wedding. Sheldon settles for Stuart as best man but, once Leonard tells Sheldon that, as the groom, the decision is his alone, he picks Leonard. Amy is set to call Bernadette but, once Penny realizes Amy is her best friend, she immediately pitches herself for the position and Amy enthusiastically chooses her. Amy later makes Penny tell Bernadette the bad news.
In the third-season finale, Raj and Howard sign Sheldon up for online dating to find a woman compatible with Sheldon and discover neurobiologist Amy Farrah Fowler. Like him, she has a history of social ineptitude and participates in online dating only to fulfill an agreement with her mother. This spawns a storyline in which Sheldon and Amy communicate daily while insisting to Leonard and Penny that they are not romantically involved. In "The Agreement Dissection", Sheldon and Amy talk in her apartment after a night of dancing and she kisses him on the lips. Instead of getting annoyed, Sheldon says "fascinating" and later asks Amy to be his girlfriend in "The Flaming Spittoon Acquisition". The same night he draws up "The Relationship Agreement" to verify the ground rules of him as her boyfriend and vice versa (similar to his "Roommate Agreement" with Leonard). Amy agrees but later regrets not having had a lawyer read through it.
Leonard tells Zack and Marissa he will father their child, but Penny tries to seduce him despite knowing he has to be abstinent for a few days. Her visiting father, Wyatt, points out her actions suggest she is more conflicted over having kids than she lets on, which she admits. Wyatt says he will support her no matter what. Meanwhile, Sheldon and Amy warn that he will not be allowed to raise a child that is not his. Leonard decides not to go through with it; he tells Zack to have Sheldon be the donor, but Amy forbids it. Meanwhile, Howard turns Raj's cancelled bachelor party into a couples' trip into a zero-gravity aircraft, though he's convinced that Bernadette would hate it. Bernadette tries to get out of it so Howard sits out, forcing Bernadette to go through with it just to prove him wrong, though she does not enjoy it.
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In August 2009, the sitcom won the best comedy series TCA award and Jim Parsons (Sheldon) won the award for individual achievement in comedy. In 2010, the show won the People's Choice Award for Favorite Comedy, while Parsons won a Primetime Emmy Award for Outstanding Lead Actor in a Comedy Series. On January 16, 2011, Parsons was awarded a Golden Globe for Best Performance by an Actor in a Television Series – Comedy or Musical, an award that was presented by co-star Kaley Cuoco. On September 18, 2011, Parsons was again awarded an Emmy for Best Actor in a Comedy Series. On January 9, 2013, the show won People's Choice Award for Favorite Comedy for the second time. August 25, 2014, Jim Parsons was awarded an Emmy for Best Actor in a Comedy Series. The Big Bang Theory also won the 2016 People's Choice Awards for under Favorite TV Show and Favorite Network TV Comedy with Jim Parsons winning Favorite Comedic TV Actor. On January 20, 2016, The Big Bang Theory also won the International category at the UK's National Television Awards.
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.