To the OP:
MOCs have until Jan. 31 to submit their slates to USNA. They may wait until the last minute to notify USNA -- even having notified the candidates much earlier -- for a host of reasons. The timing of their notification had no affect on whether USNA offered you a direct appointment or NAPS. You didn't even need the nom for NAPS and, if for some weird reason you were offered NAPS b/c USNA didn't think you had a nom (which I doubt), once they learned of the nom, USNA could easily have converted you to a direct appoint.
Second, with all due respect to the MOC staffer you talked to, I rather doubt that the MOC's office is providing a "dossier" on its nominees to USNA. Moreover, in most MOC offices, the decision on nominations is made by a committee of volunteer citizens (and then ultimately approved by the MOC). The staffer is typically an admin person who oversees the process, but is generally not a decision maker. Also, I would be VERY hesitant to conclude the parents want it more than the kid -- how do they really know this unless the kid was stupid enough to say so point blank during an interview -- and most kids aren't that stupid. If if the MOC team suspected this, I again doubt they would convey this to USNA.
All NAPSters must apply for nominations while at NAPS. However, as I'm sure you were told, if you don't get a nom and successfully complete NAPS, you will receive a nom from SecNav. So, it's not a huge deal. Also, decisions on appointments for NAPSters and Foundation folks aren't made until the very last minute (usually around April 10-14), so it won't matter if a nom is submitted even months after the deadline.
Finally . . . and this is just my opinion, you may want to scale back a bit of the "attitude." You're a few weeks away from joining the military (and the US government). Not everything happens in an instant ("hurry up and wait" is a common refrain), not everything is "fair," and you won't always understand the rationale for everything you are asked or told to do. Stress will become a way of life -- how you deal with it will mean the difference between success and failure over the next 5 years and beyond. Take a deep breath, vow to do your best, and go with the flow (providing, of course, the "flow" is going in a legal direction).