Maybe - But that choice is taken away from me completely.

It's not. You could install a root certificate from the ISP and then they could man-in-the-middle your traffic.

Encryption is what allows user choice rather than leaving you at the mercy of your ISP.

Its not true. At least in mobile app they use something called ssl pinning to serve ads.

Then your problem is that you have a locked down device that isn't truly yours. App makers always had the ability to use a proprietary encrypted protocol to serve ads. DNS-over-HTTPS doesn't give them that ability. But it does provide a standard that people who do really own their own devices can use to preserve user choice. No one should protest that.

You can't easily use custom root certificates on Android.

If both of the two ISPs that serve my area make the choice to inject ads for me, that choice will be taken away from me completely.

I'd much rather take away the choice to screw with what I see from my ISP.