Ronald is right, everyone on this board could have their own list and they would all be worth a look. As much as we like to lament certain aspects of the world of golf and its courses, there are plenty of great values to be had.
My two cents...
The Trophy Club (Lebanon, IN) - I've said plenty about this course before, but $59 for 36 holes is hard to beat. Tim Liddy made the most out of this site, using the existing landforms to create interest and variety. I'm about 3 hours away and if a year goes by that I don't play TC I'm a little disappointed.
Gibson Bay (Richmond, KY) - Looking at their website, it seems they've jacked up their rates...all the way to $15 weekdays and $24 weekends (with a ridiculous twilight of $10). I haven't played Gibson Bay in about 10 years, so I'd be interested to hear how they are doing these days. When I was in the area, it would occasionally be a bit crowded and slow. However, more often than not it wasn't an issue.
Keller Golf Course (Maplewood, MN) - When I lived in the area, it was typically in really good shape. You get the feel of a classic golden age course with the dedicated clientele of a beloved muni, a great vibe that I hope remains following Richard Mandel's work and the construction of the new clubhouse.