Make the Atlas like these. Simply awe-inspiring weapons, you can see them arc into the hull, see the massive result, and they have a large-enough model to possibly be intercepted and shot down by a fighter.
Actually - the idea of a Cap Torp with a large model is a really good one.
A true Cruise Missile - with a complete tracking radius so it can turn around and follow a target if it misses, but do so slowly!