Scene numbers

Is there a way to add Scene Numbers to each Scene Heading?

Yes, in the Formatting compile options pane, click on the row type that is being used for scenes (usually text files; third row in the table). Click the Modify button, then Level Settings. There you’ll find a Prefix box you can put any counter placeholder into. So "<$n>. " would add a number-dot-space in front of the scene name. Next time you compile you should get numbered scenes.