The Illustrator menu contains all the Illustrator-connection features you may need:
When you reload a 3D preview in Origami, the application asks the plugin to look for a visible Origami layer in the current Illustrator file. Once it finds the layer, the plugin parses its paths to find cuts and folds, and computes its bounds. After that the plugin gets the artwork from the other layers that have the same bounds and sends everything back to the Origami application for further processing.
The same happens when you render an image or save a 3D shape, but in these cases the plugin tries to get a high-resolution version of the artwork. If the Use whole artboard option is enabled, Origami uses the artboard bounds to get the artwork. If the document has several artboards, Origami uses the one that contains the Origami layer paths.
You can also provide backside artwork for your layout. To do this you need to make another artboard called “Origami Backside”. Then clone the “Origami” layer, name the copy “Origami Backside”, place it on the “Origami Backside” artboard and flip it horizontally, so it represents the back side of the dieline. This way Origami can find and use the backside artwork.
The good news is that the actions above can be done automatically by clicking Make/Update Backside. Do not edit the layout in the “Origami Backside” layer, as it will be re-created the next time you use the feature.