You are customizing specific views/grids in Store Commander, but this is not saved when you browse the interface or at your next connection?
These modifications are kept in employees configuration files and no longer in local cookies as it was the case in previous versions.
If more than one person works in Store Commander using the same employee's account (login details), check whether your colleagues are not changing your customized settings.
The solution would be to create an account in PrestaShop for each employee working with Store Commander.
On the other hand, if each employee uses their own login, verify that folder /SC_TOOLS/UISettings/ exists on your FTP.
If the folder exists, check its permissions settings.
If the folder does not exist, you will need to manually create this folder (case sensitive) and assign the correct write permissions.