Agreed, this is progress! Nothing to panic about! She's not rejecting him, she's just overwhelmed. Her whole 'thing' has been denying or suppressing that she's into Sugawara. The first time he confessed on the Bus, she was too dense to even know it was a confession. The second time, at the beach, she "didn't hear it". She sort of revealed that she knew what he said the very next chapter, but convinced herself she was wrong I guess. Ever since, she's been trying to convince herself that she doesn't like him as much as he likes her (even though she totally does) and also that Sugawara isn't really into her and that he's just a "nice guy". This third time he's confessed though, it was very explicit and she can't deny it. Thus, the whole crying and running away thing. She'll confront it, and Sugawara will FINALLY get an answer.
Poor guy's only had to gather his courage up three times to get it...
