1. Waterproofing is possible with replaceable batteries.
2. Larger batteries are possible with replaceable batteries. In fact, replaceable batteries makes this easier. I'm old enough to remember when you could buy a bigger battery for your cell phone that came with a bulged cover to accommodate it. If you don't want that though, you will have the choice to avoid it.
3. Smaller/lighter phones are possible with user-replaceable batteries. You could even use a smaller/lighter battery, too, if you wanted
These options aren't being taken away. We're just adding another option.