Check if the Folder: C:\Windows\System32\config\systemprofile.VirtualBox exists. If this folder inherits only logfiles - delete the whole folder or move it to a new position
Now Link the correct folder to this position from a commandline (yes its possible with ntfs):
mklink /j C:\Windows\System32\config\systemprofile.VirtualBox C:\Users\Administrator.VirtualBoxmklink /j C:\Windows\System32\config\systemprofile.VirtualBox C:\Users\Administrator.VirtualBox
(replace Administrator with the accountname you are running your virtual machines)
The ssh shell uses the folder C:\Windows\System32\config\systemprofile.VirtualBox as its virtualbox folder while the usual admin login uses C:\Users\Administrator.VirtualBox. If you are ok with managing your virtualbox machines via a commandline, you could just move the files from C:\Users\Administrator.VirtualBox to C:\Windows\System32\config\systemprofile.VirtualBox and ignore the link above.