LORELAI: I’m talking about – did it start with me? Or did it start with you? Was it my dream that you go to Harvard? … Because I never got to do the big fancy college thing? Maybe all this time I’m thinking it’s all for Rory, when really it wasn’t.
Lorelai is being disingenuous – she knew perfectly well that Harvard was her dream for Rory when she discussed this with Mr. Medina. However, she does tell Rory that she doesn’t want her to go to Chilton and Harvard if it makes her unhappy. Rory says that however it started, Harvard is her dream now, and she won’t give up on it.