Your inertia is hosed by the headwind, so during the weak part of your stroke, the bike (and your stroke) slows down more. Feels bad, is inefficient, etc.
Hmm, interesting. Might explain why I just couldn't keep up the power last time i tried ZCI's, into a gusty headwind. Not sure I understand why power output should be reduced by a slow-down of the bike during the weak part of the stroke - why should it affect the ability of your legs to generate power? (Not disputing, just trying to understand). I attributed the ZCI failure to an inability to maintain steady power, because adjusting for the gustiness caused lots of power peaks and valleys.