uhh...the 2nd one you're playing is the halloween special version which is separate from the actual story (lore) of the game (basically you can call it a separate game)...I guess that's why you couldn't see the nun weeping in that save...so play from v0.2 save onwards to see it
also apparently the older saves cause issues with the bugs fixed (there's a new bugfixed version out by the way), so I guess you and me will have to play the whole story from the beginning anyways *sigh*
Actually, I tried to finish the "main plot" in the haloween edition and at some point when I enter the church it says about "mission 7 file missing" or something along those lines. I guess that`s the cause.
But about the first save, from 0.2c version, I can`t sadly. As I said, I got a message telling me I finished all the missions, I have all 27 photos in gallery and I tried every day and time of the day for around an ingame week and I couldn`t find the redhead crying.
I guess the only solution is to wait for some reasonable 0.3 version that`s not haloween edition to get leaked here. Oh, and don`t get me wrong, even though I feel like reclicking a thousand times to get back into the point is kinda boring, I don`t really mind it, the game is in production so I`m really forgiving about it. And both of us know the 1.0 version is years from now so my expectations ain`t exactly high, or even mediocre. Just a simple game when it`s 9 PM and I don`t have a clear enough mind for strategy or online game, but still enough to play something "chilling".