Rocky, I just looked up which hechsher they used. It happens to that is one of the most reliable, well established, trustworthy and oldest hechsherim around that is virtually universally accepted.
I know nothing of the dispute you’re referring to, but despite the position on that dispute that you’ve taken and enumerated, even assuming you have the basics correct, it can be well assumed that the hechsher had legs for their statement and/or had a legitimate reason to believe what they stated — even if their might have been another legitimate side to the dispute.