Breaking systems only really need to contain enough energy to stop a car. So, up to 1/2 * 2,000kg * (40m/s)^2 = 1.6e6 J which is a lot of energy, though less than 3.6e+6 J. Going down a mountain is an important edge case, but frankly not something that you really need to use super caps for as these systems still have mechanical breaks for backup, and the lower peaks is more acceptable for battery's.
In an electric car you would then use that energy to speed up again, thus allowing for 10s if not hundreds of charge cycles on a single trip.
Note: 2000kg ~= 4,400lb, 40m/s ~= 90mph.