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.
My own *personal* fav of mine is the one where Penny gets addicted to online gaming and starts spiraling out of control all while bugging Sheldon to help her advance in the game. It’s earlier in the series and one of the first great examples of the typical Sheldon/Penny dynamic- showcasing their chemistry (as friends) She bugs him in the middle of the night in his room “Youre in my room. No ones allowed in my room!” to her calling Sheldon at work through Dr Gableheisers phone, Sheldon secretly takes out an online ad to try to get Penny laid! She is feening HARD to “level up”, such a slob with stains on her shirt, junk food everywhere, burping while throwing red bull cans and eats a leftover cheeto out of her hair! Only realizing she has a problem when she finds herself having a “virtual” drink at a virtual tavern with Howard. I die laughing at the ep everytime it reruns. I know its more Penny/Sheldon focused, but its one of my classics.
Two months after the events of "The Change Constant", Sheldon and Leonard repair Sheldon's DNA molecule model as everyone prepares to fly to Sweden for the Nobel Prize award ceremony. Howard and Bernadette nervously leave their kids for the first time with Stuart and Denise, while Raj leaves his dog with Bert. Penny has become pregnant, though she and Leonard are keeping it a secret. On the flight, Raj thinks he spots Sarah Michelle Gellar. Penny's frequent bathroom trips make Sheldon fear she is sick. Leonard reveals the pregnancy to Sheldon, but instead of being excited for Penny, Sheldon is only selfishly relieved that he will not get sick and he exposes the pregnancy, offending Leonard. At the hotel, a series of minor incidents with their kids make Howard and Bernadette want to go home. Much to their dismay, Sheldon is still insensitive. Amy furiously tells Sheldon he broke their friends' hearts and they only tolerate him because he does not intentionally do so, which she also sometimes does. Everyone decides to stay for the ceremony and Raj brings Gellar. After they are awarded their medals, Amy encourages girls to pursue science while Sheldon thanks his family and then individually acknowledges each of his friends and Amy as his other family who always support him. The episode closes with the gang eating in Apartment 4A (an allusion to the final scene in the opening credits) as an acoustic version of the theme song's chorus plays.
Filming proceeds smoothly – makeup artists do touch-ups, a prop master replenishes the pickle supply – with humor and camaraderie between takes. When a reshoot is needed because Simon Helberg, who plays Howard, held his napkin in the wrong hand, Kaley Cuoco, who plays Penny, lifts her food box high and mockingly asks, “Does it go over my head? I don’t remember.”
Barry Kripke says that he can get proof that Pemberton plagiarized his thesis, which would destroy his chances at the Nobel Prize. Sheldon and Amy decide not to pursue this; they want to win on their own merits. Leonard decides to get the information from Kripke. Amy and Sheldon give it to Pemberton and Campbell, as they refuse to blackmail them. Campbell is furious that Pemberton's dishonesty could hurt his own career. It is revealed that Campbell is sleeping with Pemberton's ex-wife, causing the pair to brawl. Afterwards, Campbell exposes Pemberton, causing Pemberton to be fired. Amy and Sheldon reject a drunken Campbell's request to join their team. Bernadette tells Howard that another waitress at the Cheesecake Factory was attracted to him back in the day, so she said Howard had hepatitis to scare her off. Howard obsesses over who it was, until he tells Bernadette she is the only one that matters to him.
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.
After Sheldon reminds the guys about the time they mined Bitcoin without him, the guys go on a quest to find their suddenly valuable missing cryptocurrency. They realize the currency is on a laptop which Leonard gave to Penny when they dating, which she then gave to her ex-boyfriend Zack. After Leonard and Penny go to Zack's apartment, he shows them a seven-year-old video that Penny recorded on the laptop soon after she broke up with Leonard. Leonard is touched by the video which shows a drunk Penny lamenting the break-up of her relationship with him.