One of the big problems with the nonprofit sector is that we are often "knowledge workers" pushing policies and fighting administrative rules with little product output to demonstrate our labors. This "product less" work means that groups that have larger publications and communications departments talk about policy work not only completed by the organization but often by lots of little organizations.
The small groups often feel large organizations take credit, media and funding from smaller groups that are "on-the-ground" getting things done. Foundations and large donors never see or hear from the little groups (access issues) so the cycle continues to pour money into the groups that claim credit first and the loudest (regardless of effort). It is almost impossible to judge from any distance from the "fight" who is really moving policy. Are the national groups really the critical hubs for information on a subject? Are the professional staff providing information and connections to grassroots volunteers?
Lets find out who really saved the Artic Refuge? Who are the experts on the Clean Water Act? Who are the grassroots groups turning to as they work on clean air issues? Find the central nodes and give them the resources to expand capacity.