Estimates range from 5 to 10 million people in the Amazonian Basin by the time Colombus reached the Americas (though some go as high as 20 million).
I don't think a few years is enough to erase all trace of human intervention. I think it was just so alien a concept to Europeans who kept very tidy woodlands like dehesa in Spain or the coppiced woodlands of Central Europe. As much as 10% of the soil in Amazonia was man-made terrapreta. And they spread what could best be translated as complex polycultural "orchards" of brazilnuts, aqui, coco, and more. Botanists have been puzzled for years by the hyperdominance patterns of some of these trees until anthropologists realized the human connection.
Anyways I guess what I'm saying is that the Amazonian landscape management is so radically different from what Europeans know that they likely just didn't realize what was before their eyes.