Lovely window! There is definitely a way to have all the things you want and need for this window. Recently we helped Melissa at PolishedHabitat.com with a similar window. She wanted to leave to transom bare while having two blinds below that operated independently.
See her window here:
http://www.polishedhabitat.com/2016/functional-fabulous-office/
We suggested that she install a floating headrail to allow her a place to mount the blinds below the transom. It turned out great!
We are here to help with any questions you may have, and any samples of the sheer shades you would like to see.
Hope this helps!
Q