That is correct historically, the Wari and Chankas originally spoke Aymara, and it is one of the reasons why the Quechua Chanka is different from the Quechua of Cuzco, during the Inca empire all the states belonging to the Empire were inculcated to speak Quechua and that is That is why there is currently a great variety of the Quechua language, for example, I know something about the Quechua of Caxamarca that is different from the Quechua of Cuzco and the Quechua Chanka (if someone spoke to me in any of those Quechuas, surely I would not understand them , not at least completely.)
It is an excellent idea, this will help to show how pre-Columbian civilizations were.
In my personal opinion, the 3 great South American powers could serve:
Chimú: Descendants of the Moche
Incas: Descendants of the Tiwanaku
Chanka: Descendants of the Wari.
As an advanced Amazonian civilization, the Chachapoyas (also called “Chachas”) could serve.
Although this is historically correct, it would have functional mechanics and it would be coherent, I am aware that they probably distribute civilizations according to geography, so they probably use civilizations like the Muisca or the Tarascos.
Civilizations that had no government organization, no masonry, and no metallurgy do not fit AoE 2, and in my perception would only reinforce the stereotype that pre-Columbian civilizations were “stone age tribal organizations.”