Each entry point should have its own bootstrapping container.
NS.Web should have one, since that is a website (I'm assuming here). NS.WindowsService should have one, since that is .exe (service).
The other projects look like class libraries, so they would not have a bootstrapping container.
In theory, yes, you can define a partial bootstrapping container in each class library which you can then use in the main bootstrapping container (in the web/service projects), to make life easier. In the partial container you would then do the bootstrapping for the components of that class library.