If you have a turbocharger, or a centrifugal supercharger, you should be able to set it up so there is almost no loss in power.
ie, at 1 bar (sea level) you have 3 bar of boost, which means that the total pressure is at 4 times atmospheric.
if you are at a high elevation and the atmospheric pressure is reduced to .75 bar, you can just compensate by using 3.25 bar of boost. this will not result in any more air entering the engine than 3 bar did at sea level.
you will lose power for two reasons though.
1.) the air will be heated more by the compressor because its pressure is increased by a larger amount
2.) you will have slightly more backpressure as the wastegate will be less open the higher you go, because of the increased boost needed to reach the total air pressure going into the engine, which is in this case 4 bar absolute pressure.
As pat said above, if you have a positive displacement blower, power losses would be comparable to what you would expect to loose in a NA application, although the supercharger would probably lose slightly less because
1.) less heat in the intake charge at higher elevation than lower elevation. even if this doesnt add power directly, it allows you to lean out the mixture slightly, which will add power.
2.) slightly less slip in the blower because of the lower pressure.
these two, of course, dont even come close to offsetting the fact that you have less air to work with in the first place.
Overall, the difference in loss between this and a NA setup should be negligible, and should more or less correlate directly to the difference in the amount of oxygen molecules in a cubic foot of air at 500 feet vs. the amount of oxygen molecules in a cubic foot of air at 3000 feet.
I however, do not know the relation between pressure, heat and actual amount of oxygen molecules. Maybe someone has a graph of that, or perhaps a formula.