The camera moves inside the plug. After a bit of time, Rei sits up.
Mr. Tines: Well, that's the romance sub-plot set up -- apart from the inevitable MISUNDERSTANDINGS that will occupy most of the next 20 episodes...
Kendrix: She watches the emotional outburst in bewilderment, still oblivious to the fact that she is the cause of it. Note that the confusion itself is pretty obvious on her face - and she has smiled before. It's less that she doesn't know what to do when she's happy, it's that she doesn't get that she should be happy at all. In her mindset, her death should not be a real loss to anyone, so why should she or anyone else be relieved?
Additional Commentary
EvangelionFan:
Rei: "Oh geez, now he's crying. How do I make him stop?"