Most settings such as favorites, custom commands, etc are automatically saved when you set them.
If you want specific tabs & paths to be opened each time you start, try this...
Set up your window(s) with the tabs & paths you want when starting up.
Under the FILE menu, select TAB SESSIONS - SAVE AS and choose a name like "my default startup tabs"
Now, again under FILE menu, choose MANAGE..
Choose "my default startup tabs" if it isn't already chosen.
CHECKMARK on [Autoload this tab session at startup], and click on [Save Changes]
It should now be autoloading those tabs every startup. Plus, you can set up other tab configurations depending on what you are working on & switch at will.
It's awesome & so much power in a program only supported by donations.
A suggestion is to use "HELP MENU - BACKUP/RESTORE to often save your current configuration. This saves all setting to a ZIP file. That way you can experiment with settings without fear of totally borking everything.