That's interesting and I sincerely appreciate your thoughtful response. There's a lot that we agree on. I agree that millions of thoughtful discussions are badly needed. Maybe this is one of them and, if so, then the protests have done a small part of their job.
It's striking to me that you don't find the protests particularly impactful, yet here you are on a discussion board talking about them and the issues behind them (in a thoughtful and considerate way, I might add.) And those protesting haven't erred so badly as to turn you off to their cause, so they haven't "disrespected the Koran" to use your analogy. One might suggest that the tactic they are employing is to gain the attention of those who might be persuaded and worry about the rest once they have reached their tipping point. I don't think they are likely to persuade a lot of those who are virulently offended as things currently stand anyway.
I definitely could quibble with some of the tactics of some of those protesting, but that's why I look towards the conversation like the one happening between the players and police in Cleveland or the BLM protest at the Trump rally in D.C. as parts of the effort to broaden.
If you have the time, think for a moment about the questions I asked from the perspective of someone who IS offended by the flag protests (as opposed to your more agnostic feelings about them). Do you know anyone who is offended by them? Ask them those questions. I'm very curious as to the parameters of those offended by kneeling during the Anthem, so any insights you happen upon would be welcome!