No offense, but what's the point of making those CIAs with roms injected at this point when 1. the CIA has lower fps than the 3dsx release and 2. the games aren't really going to be played in their current state? I mean, sure, you could go through some games if you don't care about sound or taking 20 mins to finish the first level of Megaman Zero (which should take 2-3mins tops); but even for those people it's futile as the emulator isn't creating save files.
If anything, those that know how could help making a rom selector instead, though i'm not sure if itsthenavy already intended to do that.