While it is true that there are $2^{3}$ possible configurations for three outcomes, each of which has two possible values, this is not the situation we have here. There is one car, which is to be positioned behind one door. There are thus ${{3}\choose{1}} = {{3}\choose{2}} = 3$ possible configurations. In setting up the game, once the door to place the car behind is selected, the two goats get positioned behind the remaining two doors. Alternatively, the goats may be positioned behind two of the doors, then the car is placed behind the remaining door. The binomial coefficient appears as there are two classes of object, goat and car, and no ordering of the objects within a class. If there were a chance of a car or goat appearing behind any door, with, for instance, three cars being a possible configuration, then there would be $2^{3}$ possible configurations.
Furthermore, the outcomes of interest are which door is actually picked by the contestant. These correspond to whichever door in the actually realized configuration is chosen. So suppose, from left to right, behind the doors were a goat, the car, and a goat; there are three choices a contestant could make - left, middle, or right door - but the contestant only wins if they select the middle door. This is true regardless of the actual configuration of goats and car behind the door - contestants only win when their choice (the guessed configuration) is the same as the game's 'choice' (the car/goat configuration) of where the car is.