You can use a black and white mask to restrict the population within it's area.
You have an object and a populator. Make sure it references your planet and Compute Terrain node. Set the population size, then add an image map shader and set its coverage to the same size. Plug it in to the population density of the populator. That's it.
You can also use a Surface Layer plugged in there, and instead of or in addition to your BW mask, restrict it by terrain slope or altitude. You can also use a painted shader as a mask that you can edit on the terrain. I suggest you try the first most simple way, then get more fancy once you figure out the basic method.