to me it sounds like the shares created by your GUI are temporary and not created for retention, thus my direction to use the CLI and SAMBA as these are both NTFS and you will need to mount them as such and then share them, im guessing, with other MS Windows computers.
Ideally you will NEVER use NTFS inside of a Linux system, they are not native and can lead to corruption of data.
the GUI tools while they have come a long way, some distros further then others, are not up to par with the CLI tools yet. Think on the history of Linux, what came first and is still in use on servers today? yes that would be the CLI tools, the GUI tools are just front end managers of the CLI tools.
Again I would add their info to the /etc/fstab using UUID (google that) and to share them manually create the SAMBA shares and the samba users for your other computers to access that data.
if you do not need to share them across your LAN< then format them either ext2,3, 4 and use a native Linux file system instead of the broken MS Windows file system.