How Badly Did I Mess Up

I received an email a couple of hours ago from my guidance counselor telling me that she never received an email to submit the secondary school report and transcript. When I went on to the website I saw that I had somehow not linked her email to the application. I just linked her to the site, but I am now worried that because it is after the deadline my application might be voided for having missing components. What can/should I do?

It’s not a problem, and everything will get taken care of. MIT is very understanding when components outside the student’s control (SSR, transcript, rec letters) come in after the deadline.