How to handle conflicting instructions when applying for a grant?
When relating to granting agencies, I would say that, as a rule, it is not recommendable to submit more documentation than the one they are expecting.  

I would first make sure that the guidelines you are reading are up-to-date; you'd be surprised on how many times they are not. Once you've done that, consider whatever is written as the truth. If it is renewal you are after, restrict yourself to whatever instructions for renewal they have.

Of course, it will depend on the agency, but in my experience if something is missing either the automatic upload service (if that's the case) or someone from the agency will contact you to make sure everything is ok.