"NPR differs from other non-profit membership media organizations, such as AP, in that it was established by an act of Congress[2] and most of its member stations are owned by government entities (often public universities)."

"Typically, NPR member stations receive funds through on-air pledge drives, corporate underwriting, state and local governments, educational institutions, and the federally funded Corporation for Public Broadcasting (CPB). In 2009, member stations derived 6% of their revenue from federal, state and local government funding, 10% of their revenue from CPB grants, and 14% of their revenue from universities.[24][41]"

Depending on whether the universities are public or private, this accounts for something approaching 30% of their budget.

So that 2% figure doesn't really give the full picture.