Ok what's the proper setup for Layers in illustrator? I've tried layers in groups, expanded the layers, even rasterized them but couldnt get layers to export in illustrator. All I can export is the template and 1 layer which shows the whole image. I had to take it into photoshop and set it up in there.

cheers!

Ok I finally figured out why I couldn't export my layers in illustrator.

2 things - First make sure your script is up to date here: https://gist.github.com/NathanSweet and secondly, most important is to click on each layer and in the layers panel dropdown select 'Collect in new layer'. This is how the export script seems to like the hierarchy order.

cheers.