From Snopes -
http://www.snopes.com/politics/business/charities.asp
" :*Goodwill Industries International*is not a business that takes in donated items and resells them for a profit. It is a not-for-profit organization that provides job training, employment placement services and other community-based programs for people who have disabilities, lack education or job experience, or face employment challenges. Goodwill raises money for their programs through a chain of thrift stores which also operate as non-profits."
The rumor about goodwill being a scam is false.
And the salvation army boss is on a 6 figure salary.
I'd go with goodwill if I were you.