Ultimately apple will fix this and it depends on how you use your photos but if you create albums and file your photos therein, they are stored even once you clear out your photo stream. The thing I don't like is the fact that I was forced to create albums on my computer in the past. Now those albums are locked on the phone/iPad and I cannot add to them, but any albums I create on the phone/iPad I can add to. I can't imagine apple not supporting deletion out of the stream in a future version, since it only saves them disk space in the long run. I think in the short run we just have to get used to the idea that the stream is there to help us and trying to control what it looks like is really not the point.