I'm working on a Linux Mint at the moment, when I can I'll boot into Elementary and take a look and get back.
Ok. Now I think I managed to make things worse. For some reason the internet was no longer working, and I couldn't access my files. After restarting the system, I saw that it didn't recognize the login password. I am accessing it now by a bootable pendrive
I tried to copy the /home folder back from the HDD to the SSD (since at this time it was empty) to see if it would return to normal to complete the task, but I was unable to grant authorization to create new folder or paste the files.