I'm not sure exactly how the amount of supplies used up will be calculated (need to figure it out, and soon!), but there definitely won't be a situation where you make a choice regarding which types of ammo to stock up on.
It seems like a choice you get no real reward from making - you either screw it up and suffer for it, or you get it right, and your ships continue to function normally (yay?). I think it would be tedious in the long run, at least without some more mechanics built up around it to make it interesting.