The main thing to remember, especially when mining/harvesting/fishing in great numbers is stacking. Different qualities means they won't stack so you'll run out of inv slots fast. And if you stack them of course it means an averaged quality. I'd probably keep 3 stacks - low, medium, and high - or something like that.
Compared to the benefit of variable quality, which is long overdue, it's a minor problem...you just have to develop your own strategy for it. Just something to keep in mind.