I’m on version 1.0.3. Here my bug:
I created a new project from the fiction template giving it the same name my old project had. Scrivener alerted me that the old project was going to be overwritten. So far so good (I had already saved it under a different name, just in case. I really intended to start with a blank project, but wanted to use the former name).
So I agreed and scrivener created my new project. Within the binder I started to create several documents. When I reopened scrivener, I noticed that some of those had suddenly snapshots from my old project! (the one that currently is saved under a totally different name on my harddrive).
In the snapshot folder there are ALL the snapshots from my old project (well, not anymore 
).
I think what happened is that when you create a new project from a template choosing an already existing file name, then the binder is created from the template, but you don’t get your snapshot folder “tidied”, so the existing (old) snapshots appear on those new documents in the binder that happen to have the same number. But that doesn’t make much sense, does it?