I'm not sure it's Samsung's fault. I also have this problem and it's affecting both my Sony Vaio Fit Flip 13 and my wife's Samsung 13 Ativ Lite. After every reboot the Elan settings revert to the annoying 1-finger-click which means you are constantly clicking things in error when just trying to move the mouse.
I've tried downloading the latest drivers from Elan but it didn't fix it. Although a right click on the icon in the taskbar suggests you can save favourite settings, it launches an odd window with Add, Modify, Delete and Save. Save doesn't save the settings.
Has anyone found a solution?