Whenever I get the pleasure of working over on Point Loma, I swing by Peet's for an early morning pick me up. Because I go here only a few times a year, I pretend it's a local coffee shop and that makes it all so much better! Bonus points for the hula hooping lady in the parking lot!
There is usually a line in the morning because everyone is coming in on their way to work, but there are always 2 or 3 cashiers and separate baristas making the drinks so it moves quickly. Lately, I've been obsessed with the chai latte and it has a distinct flavor that I haven't tasted before. I also appreciate the freshness of the baked goods and the fact that I can order a small, medium, or large beverage without getting back handed...
If you're in the area, go to Peet's. Friendly service, interesting crowd (high schoolers, college kids, middle aged, old, everyone flocks here), and quality coffee chain but not as popular so it still feels authentic products!