I think a lot of what is taken as gospel in the field of nutrition will probably be looked back on as barmy or the result of ignorance. The low-fat thing already seems to be going that way.
Takaki most likely had to contend with thinking his cure for beriberi was similarly "monumentally stupid" and "based on poor 'science' and scaremongering", which prevented an objective examination of his experiments.
Yet the American Heart Association treated this study as a curiosity, and doctors deemed it only worthy of snide comments about using it to justifying conference trips to hospital administrators.
http://freakonomics.com/2015/04/09/how-many-doctors-does-it-...
As for science, the two examples I'll trot out yet again are Pluto, and kibibytes. Pluto, is of course, not a planet, yet many cling to the nomenclature simply because that's what they learned growing up. More relevant for HN's is usage of kibibytes for 1024 bytes and kilobytes for 1000 bytes. Uptake on replacing the more traditional usage is similarly slow, for some reason.
The ramifications of that aren't clear, though, as it could be something so simple as the risky/difficult procedures being delayed when the best docs are out of the hospital.
Pluto is sort of the same, though at least there's an empirical justification in that there are other similarly sized bodies that shouldn't qualify as planets, so a consistent definition was chosen to exclude them and Pluto. But because it's a definitional change rather than a new discovery, people can be slow to adopt it.
In my opinion, the unsolvable nature of this kind of problem is a lesson in the importance of humility. After a lot of hard work and rigorous investigation, it is easy to conclude that some conclusion must be correct. Unfortunately, as science can only works within the range of known observations. New evidence can completely undermine supposedly "certain" conclusions. Much to the annoyance of the people reporting on scientific discoveries, or the people that demand certainty in any report so they can rely on it (e.g. for military purposes), there is no "final" conclusion in science.
I assumed the OP was submitted as a parallel to the (possible) connection of some mental illnesses to inflammation and infection, just seen on HN: https://news.ycombinator.com/item?id=9388176
Both feature doctors noticing weird chains of causation that accidentally cure mysterious ailments.
What analogous contemporary ideas will people be laughing about in the 22nd century? What parts of how we view science and medicine are costing lives?