We've done a few blind taste tests at the office between an AeroPress and percolator (and keurig and pour over if we're counting). I suspect it's largely personal preference as the percolator advocate has chosen the percolator brew and I (the AeroPress advocate) choose the AeroPress. To me the percolator has a certain (undesirable) taste profile that always tastes like percolator. Academically I don't like that the percolator keeps "recycling" the water during the brew cycle.
jevin|12 years ago
Side note, I just discovered that what I was referring to as a percolator, is actually called a Moka Pot : http://en.wikipedia.org/wiki/Moka_pot