You know what man, no matter which car you get, you're going to be disappointed with what you can get for it. I think the bigger problem you might have with a manual is time to find a buyer. As the others have said, those that are looking specifically for a manual won't necessarily pay less...they're just few and far between.

This is what I say; don't worry about it. Get what you'll enjoy the most; I think in the long run, you won't regret a manual. I think you WILL regret buying an auto...at every stoplight and in every passing situation...because the day you bought it you were afraid you'd get a couple hundred less for it down the road.