You brought up chocolate. Hersheys arguably is chocolate and the Consumer Reports study is actually about dark chocolate, and all the amazing chemicals in it.
The fact that you are talking about "chemicals" in this generic way is what makes it chemophobia. There can be no serious point in talking about "chemicals" that can't even be defined, it's always irrational.
[1] https://www.fs.usda.gov/Internet/FSE_DOCUMENTS/fsbdev2_02581...
Keep in mind these studies are from 1997, the world wasn’t even ruined by the Internet at that point. The studies about humans described in your link are: some idiot drank half a cup of it, and he didn’t die, and the rabbits and mice seem ok. It’s safe! I just struggle, because even at that time these types of anecdotal statements were so dubious. It’s now over 25 years later, so what are the long-term effect?
As a point of comparison, Johnson and Johnson continues to insist that their asbestos laced baby powder doesn’t cause cancer (contradicting reality), so Monsanto now Bayer assurances don’t generate much confidence for me.