When importing as an fbx into maya, some of the pieces were transparent. I fixed this by going back into maya and combining the separate pieces that shared the same material. i think the issue was something to do with the grouping in maya so combining it all down into only 3 objects made it a lot simpler and more manageable and was also a lot faster to import.
I used anchor points and generators as well as a normal texture I made from the image above in order to create the wing texture in substance painter.
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