I doubt that you think about rods and cones when you are deciding if it's safe to cross the road. The question is: is there something in your perception of illuminated traffic light, that allows you to say that it is red or green or yellow? Or maybe you just know that it is green or yellow, but you can't see any differences but position and luminosity?
I don't understand what the question is getting at. You're right that I don't think about cones when I check which color a light is, but this is the mechanism by which it enters my brain: since different lights enter my brain in different ways it is no surprise I can differentiate between them.
I encounter many intelligent people (not usually LWers, though) who say that despite our recent scientific advances, human consciousness remains a mystery and currently intractable to science. This is wrong. Empirically distinguishable theories of consciousness have been around for at least 15 years, and the data are beginning to favor some theories over others. For a recent example, see this August 2011 article from Lau & Rosenthal in Trends in Cognitive Sciences, one of my favorite journals. (Review articles, yay!)
Abstract: