What was the reason behind you splitting up for three months? Was there a trust issue involved? Did you voice thoughts/concerns/accusations that she'd see others while you were apart?

The fact is, posting here doesn't mean you didn't do it at all. Many who would do something like this would post here to "prove" their innocence, but it doesn't prove anything. I'm not saying you did it, just that posting your innocence and concern doesn't mean you didn't do it.

The black and white of it is this the Keylogger program didn't just appear on her computer, it had to put it there. Maybe it was installed or maybe it was unwittingly installed by her clicking a link someone sent her which contained the program. Unless the Best Buy crew can give her an email address the information is being sent to and it is clearly someone other than you (it would have to be someone she knows or it could be a secondary email address you created), you won't be off the hook.

If you put yourself in her shoes, putting getting back together on hold is a smart thing for her to do. Why would you want to move forward with someone you suspected of doing this to you? You'd be just as upset as she is if you found such a program on your notebook.

All you can do is accept her decision, hope they can identify an address that clearly isn't you, hope they don't find spyware on her phone and hope there isn't enough damage done previously to your relationship that this doesn't put reconciliation out of reach. If she's willing to consider continuing, your continued behavior working towards resolving problems and compromising will tell her what she needs to know.