Yeah, fluffy naming can cause problems sometimes, but they're not the problems that I keep seeing people mention. To use Exalted as a example, since it uses fluff naming far more extensively than 4e will, Implicit Construction Methodology says very little about what it does, except maybe "constructs things". That's not the problem - anyone who's actually read the ability will know in an instant that it's the top-tier (and sorta broken) Sidereal Craft charm any time they see the name.
The problems are the injection of very setting-specific flavor into the core rules - which Exalted does to a huge extent, being one of the most setting-specific games out there - and the fluffy names being just plain hard to remember. While hearing "Golden Wyvern Adept" after I've read its power will instantly call its ability to my mind, it's sometimes harder to go the other way: goodness knows I've said "Distracting Finger Gesture Technique" when I meant "Distracting Finger-Gesture Attack" and "Cloud of Fiery Devils" when I meant "Cloud of Ebon Devils" enough times, where I know exactly what power I'm talking about and can't recall its actual fluff name.
The problems are the injection of very setting-specific flavor into the core rules - which Exalted does to a huge extent, being one of the most setting-specific games out there - and the fluffy names being just plain hard to remember. While hearing "Golden Wyvern Adept" after I've read its power will instantly call its ability to my mind, it's sometimes harder to go the other way: goodness knows I've said "Distracting Finger Gesture Technique" when I meant "Distracting Finger-Gesture Attack" and "Cloud of Fiery Devils" when I meant "Cloud of Ebon Devils" enough times, where I know exactly what power I'm talking about and can't recall its actual fluff name.