There’s an old mantra from organizing: “no permanent enemies, no permanent allies.” You will never align with another group or person 100% on all things; the secret to making change is to build a coalition of those with whom you agree on an issue without holding it against them that you disagree on a different one.
I disagree with Mozilla about many things, but I agree with this article - I use Firefox because it’s the only browser out there that isn’t Chrome or WebKit, and that’s worth enough to me that I’m willing to disagree with them on other issues.