Why in the world are you conflating Agaddah and science? You wouldn’t get this reaction about science. There are parallel conversations here and as I said, it was not a good idea to hold them side by side.
Saying that they weren’t aware of non-Torah concepts that they couldn’t be aware of has nothing to do with questioning their Torah. Melagleg Al Divrei Chachamim is an Halachic problem, and it applies to Agadda. We don’t Pasken Halachos based on Agadda, but that has nothing to do with rejecting it.
If I find a concept about Darkei Hashem in a Sefer of a famous Achron, while I might want to learn how he came to that conclusion, I wouldn’t say, this is disturbing; what are his sources.