I can tell you from my work with a 5A virus capsid that NCS can make your maps look much better than the resolution dictates. You didn't say how much NCS you have, but you may also consider NCS averaging as a tool. Also be aware of high NCS contaminating the free set of reflections- I think Phenix can auto-magically pick in thin shells to mitigate this effect.
Partially correct - it can pick in thin shells but this isn't automatic. Either the reflection file editor in the GUI or phenix.refine (when starting without a test set) will do this if requested.
For general reading on low-resolution crystallography, there are a couple of recent reviews by Axel Brunger et al.:
-Nat