I own Canon L lenses as well as several Zeiss lenses. I actually think the Canon's are better overall. I do video, so the Zeiss lenses have amazing mechanics for manual focusing and interesting color.
With that said, Zeiss (at least the 50mm f1.4 and the 85mm f1.4) have fairly strong Chromatic Aberrations when shot wide open to f2. The Canon's tend to do better when shooting between f1.4 to f 2 with less CAs.
Also, I notice that the Canon's tend to have rounder Bokeh. On the f1.4 Zeiss lenses, once you start shooting at f2, the Bokeh is no longer circular, but a very pronounced hexagonal shape. On the Canon's, much less so.
I do love the mechanics of the Zeiss, but overall, I would say Canons have the better IQ, even though Zeiss has a great and unique way with color.
Plus, in the near future, lenses with electronic focus and aperture control will have an edge with many of the soon to come video features such as continuous autofocus. Plus the AV mode is great for day to night timelapses, if you have a program to take out the flicker. I do a lot of time lapses, so that's important to me.