How do I make a smart shape invisible for users to see?

You can make a shape appear invisible to your end users by setting the Fill and Stroke settings in the Style tab of the Properties Panel of the shape in question. Under Fill set Opacity to 0% and under stroke set the width to 0. You will still see a faint outline while working on the project but the published version will be invisible to your end users.

???? Don't understand what you mean. What is a 'box' that you bring in? Is this a Text Entry Box? I don't think so, because that is never a shape. If you really mean a shape: to make it invisible, set Alpha for the Fill to 0, and the Stroke width to 0 as well.