With the lack of relevant information available for Ben to understand what exactly he has gone through, especially the systems decision to make changes without informing him what exactly they were.
It would be up to Ben to find out what they were through sheer luck mostly.
The Gene Bank and Blacksmith Intuition were a good place to try and figure out what were the changes.
But before that, he first noted the affects that were constantly transforming his body had stopped.
He didn't know if the system stopped it or that was the limit of the changes to his body, however he learnt a new skill coincidently while dealing with instruments that inflicted the changes.
The State of the Body would allow Ben to see those various sources moving around his body.
He could see how the sources affected the density of his skin, his blood vessels, muscles, and organs, but each sources method was different.