Two things might be happening. You didn't mention priming the patches before applying the finish paint. The patches will soak up some paint causing flashing, areas with a different sheen. If this is the case simply apply another coat of paint. Try painting the patches again then paint the entire wall if needed.
Another possibility is you used a course grit sandpaper or sanding sponge. You could try re-floating the patches and then re-sanding with a smooth sanding sponge. Spot prime and paint. Paint the entire wall only if needed.
If these ideas don't work then painting with a good flat could hide the patches.