Spiritual texts (depending on how you define spiritual) seem to have been misinterpreted or interfered with before the middle ages, during the middle ages, or during the age of enlightenment, heavily affecting the social sciences and philosophy. Alternatively, there may just be conflict of interest and also potential Hellenocentrism and Eurocentrism.
Examples: Commonalities and patterns between alchemy, astrology, Chinese Medicine, Chinese philosophy, Indian philosophy, four humors, Greek philosophy, Ayurveda, and Jungian psychology
A more specific example: The Chinese zodiac is very similar to the Chinese energy clock in Chinese medicine and four seasons which seem to relate to chronobiology. It doesn't seem to have to do with astronomy or months of the year. The zodiac signs seem to be archetypes or symbolic of organs.
https://www.ecosia.org/images?q=chinese%20energy%20clock
https://en.wikipedia.org/wiki/Chinese_zodiac
https://en.wikipedia.org/wiki/Classical_element
https://en.wikipedia.org/wiki/Four_Symbols
https://en.wikipedia.org/wiki/Biological_rhythm
Alternative medicine also seems to be heavily mistreated in the scientific community. I know alternative medicine may seem like pseudoscience, and some of it is, but most of it isn't pseudoscience. Most of it isn't what its branded as either. The skeptical movement seems to be involved to some extent with regards to its branding and possibly research interference with a lot of bias in that community.
This seems to possibly be a consequence of current science policy and infrastructure and may be worth looking into further as it could have massive implications for a massive variety of areas including but not limited to psychology, philosophy, and medicine.
Some of this may not be scientific, but it's worth noting. Also, I realize my username may suggest potential bias which is worth noting too.
Dr. Jeffrey Bland provides a good explanation. https://www.youtube.com/results?search_query=dr.+jeffrey+bland The skeptical movement and conflict of interest from certain industries such as the biotech industry and sex industry appear to be at least partially responsible for the replication crisis and appear to have a large or widespread influence or impact in academia and the scientific community.
Some stuff that seems "woo" does seem to be pseudoscientific. I'm not denying that. However, there appears to be bias towards and conflict of interest regarding much of it which has implications for philosophy and many social sciences such as anthropology, political science, medicine, and archeology. Also, I'm not claiming these interpretations are scientific, but there does seem to be a lot of evidence to support them.
I have some more examples:
https://www.ecosia.org/images?q=alchemy
https://www.ecosia.org/images?q=egyptian%20mythology%20brain
https://en.wikipedia.org/wiki/Divine_spark
https://en.wikipedia.org/wiki/Pineal_gland
https://www.sciencedirect.com/science/article/pii/S2005290113002082
https://www.youtube.com/watch?v=q9cTJef4gzE
https://en.wikipedia.org/wiki/Inward_light
https://i.pinimg.com/736x/85/08/0d/85080d85bb8a79251c65dd36d47a6fe6.jpg
To add to these, it's said the eyes are the window to the soul.
There's evidence to suggest the “monster under the bed”, “boogie monster”, “monster in the closet”, and the “monster is just a tree branch” meme are occurrences of sleep paralysis. There's also evidence to suggest the Bloody Mary ritual is related to their third eye and hallucinations.
https://www.ecosia.org/images?q=halo%20crown%20chakra
https://www.ecosia.org/images?q=crown%20chakra%20enlightenment
https://www.reddit.com/r/todayilearned/comments/kg5usd/til_not_long_after_julius_caesar_was_assassinated/
If you look at verses about "God", "God" could possibly refer to the universe (sometimes in a general sense), an enlightened individual or guru, or the holy spirit, the father, and the son, depending on context.
https://commons.m.wikimedia.org/wiki/File:SahajaSubtleSystem.svg#mw-jump-to-license
http://sutrajournal.com/images/2016/jan/alchemy.jpg
https://www.royalartsociety.com/wp-content/uploads/2018/04/aqua-vitae-alchemy.png
https://i.pinimg.com/736x/22/34/9f/22349f8c66132882a15ec4cd5ce178ff.jpg
https://en.wikipedia.org/wiki/Kundalini
https://en.wikipedia.org/wiki/Caduceus
https://i.pinimg.com/originals/b7/1d/45/b71d45dbb63347f0eca868ee4a1df32b.jpg
https://en.wikipedia.org/wiki/Angel
https://en.wikipedia.org/wiki/Harpy
https://en.wikipedia.org/wiki/List_of_cryptids (these seem to be Jungian archetypes which seem to be evolutionary)
It seems like more than a coincidence that Roman deities are referred to as planets, "planets" are involved in astrology and, if I recall correctly, alchemy, and there's a practice in Taoism called the microcosmic orbit.