I have a "multi-site" installation of Drupal 7, which means that I have these folders in my "sites" folder:
all
domain.one
domain.two
domain.x
And in each of these folders, I also have "modules" and "themes" folders.
If I click the "install new module" link on the modules page ("admin/modules") from any domain X, Drupal tries to download modules in the "all/modules" folder instead of the "X/modules" folder.
Maybe I am not using the proper phrase to search in Google, but I do not see similar problems, so it may just be my problem.
How to install site-specific modules in a Drupal 7 multi-site?