Ozone is a potential problem - ozone is a strong oxidizer (it is, in essence, juiced-up O2), so too much residue in the bottle could oxidizer your beer, giving you the same wet cardboard taste you get if you splash too much when you bottle/transfer. At room temp, in water, ozone has a half-life of 20 min, meaning it takes ~5 hrs for it to dissipate completely. Of course, the amount transferred may actually be quite low, given that only the residue on the bottle is all that has the ozone, and your ozonator likely produces 1-5ppm ozone. I'd give it a try, with the caveat that you may end up with a bit of a cardboardy taste if you don't clear enough of the water from the bottle and/or let the bottles stand long enough.
Bryan