Have been a fan of SR since 1e and have most of the 1e/2e/3e books on my bookshelves. The more recent editions I have in pdfs via Humble Bundles and Bundles of Holding. I don't like many of the newer 'fluf' directions they went with, where the internet now is more like another form of magic, etc. I didn't notice the lack of NAN content in the more recent editions because I didn't go very deep into the fluff after already been very disappointed by the global directions of the SR fluff.
People need to realize that back in 1989 there was very little Internet, this game was designed for the American market by Americans (FASA), with all the particularities that entails. Their initial focus was Seattle, anything beyond that was window dressing and only later they expanded to other American 'nations', they did two whole books on the NAN (Native American Nations). Meanwhile, SR became popular in other countries in the world, like Germany. They did their own translations in German and even did their own setting books (like the Berlin book). These days SR is played across the world, in many different countries, and while the main setting is still Seattle, I can understand why they would be more setting agnostic then with the first couple of editions.
As a European, I always thought of the native Americans in SR as heroes that took back their native lands and kept some of the Americans in reservations like Seattle. I thought of the Goblinization as social commentary on when skin colour suddenly became irrelevant and where rich white men turned into Trolls and Orcs, which created a new kind of fantasy racism that was of course social commentary on racism based on skin colour in the rest of the world.
What exactly did FASA do wrong with the representation of native Americans and the NAN in 1e? It's been a long while since I actually looked into those books and all they've left are impressions (which aren't bad). Nor am I a native American scholar. Add to that that I'm European (Dutch), which translates to that many of the American social stuff is very alien to us/me.