Earlier quoted context omitted.
The EFF is and has always been a political activist organization. Of course they care about ideological concerns.
He's saying that they have ideological concerns beyond the ideological concerns you would tend to associate with the EFF (digital privacy, open source, patent trolling, etc). I for one am sad to see that this is the case. There are fewer and fewer organizations protecting civil rights without being dragged into left/right tribalism.
Do you not see that civil rights are being infringed _right now_, by the republican administration in our government? Protecting those civil rights will require criticizing and acting against republicans because the fascists on the right are trying to turn our country into an autocracy.
Sorry if that hurts your feelings, but you can’t be that fragile if you want to live in a free nation. The EFF taking a stand here is fighting EXACTLY the fight they need to be right now.