Cassandra isn't mentioned again.
As you could probably tell, Shen fell in love with the German scientist. So after Fury shows up to save him from HYDRA at the eleventh hour and promptly downs the helicopter in which the scientist and WS are escaping on without knowing all the facts, he quietly stops believing in everything he stood for with SHIELD. Afterwards he gets sent to China undercover for his next mission... in which its inferred he changed ideologies and somehow became Iron Nail.
With the scientist dead, the formula is lost.
WS does get recovered and re-programed by the Soviets at the end.
About the retcons, I didnt think that WS's origin was changed at all, and Fury could as easily been a LMD. No muss no fuss.
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