I started on this path when I was trying to nurish myself back to health over a decade ago when I suddenly got fat. I thought science was the way to go... but was robbed of that notion a couple of years into it when I discovered that the path to health was in the opposite direction of what the science tells us.

Turns out the food industry fully controls the science of food and nutrition. You can start by reading Unsavory Truth or Food Politics by Marion Nestle for better understanding of why that is the way it is.

Having said that, Marion Nestle doesn't really explore one side of it... which is that because of ethical reasons, we'll never have proper human experiments, thus nutrition science will always be limited and incomplete, which leaves a lot of room for manipulation, which the industry is happy to do for profits. This has been covered very well by the YouTube channel What I've Learned: https://youtu.be/xRAw7yeDO-c

The same channel has several other videos on food and nutrition, one of the most important ones imo being the one on seed oils: https://youtu.be/rQmqVVmMB3k

Nutrition and Physical Degenaration by Weston A. Price as described in this thread is one of the best works in support of indigenous foods.

The Hidden Life of Trees is a great book on plant intelligence.

Other than those resources, we have to piece these things together, take long term views... like should we trust a diet that kept a culture of people alive and well for 100s of years over several generations or do we trust studies with couple of dozen subjects done over a few weeks funded by the food industry?