Indigenous means people here first. So they are indeed, indigenous. Actual definition: "groups of people who lived in a place before colonization or other groups became dominant."
Given that dozens of waves of "natives" came over from Asia via the Bering Strait, with groups constantly dominating and genociding another before Europeans even arrived, who exactly now earns the term "indigenous"?
Yes when comparing to another group in the same area, “indigenous” means the first group.
There weren't particularly “waves” of people into the new world. Nearly all the people in the new world are descendants of the first inhabitants. ( Inuit are the group that is recent (1000 ya). ) They were here long enough to evolve into several different sub groups. Whether the descendants killed each other or not doesn't change the evidence that they were all indigenous .