Shadows of the Moon

Twilight awoke with a jolt, fearful for being late, she quickly glanced towards the clock to check the time.

“Good” she thought, there was some time left for a quick meal before meeting with Luna and the new foal to perform some basic tests upon him to try to gain a greater understanding on what happened several days ago in the infirmary.

Exiting her bed, Twilight entered the bathroom to both shower and use the provided facilities. Once finished she checked the clock again, just to ensure she would stay on time before entering the dining hall for the evening meal (Morning for Luna)

Deciding to eat something high in energy, Twilight opted for some porridge with chopped slices of fruit in them to help keep her going throughout her planned experiments. After several minutes she finished her meal and walked to Luna's bed chambers to await for her there.

After several minutes Luna approached, the foal asleep on her back, with an inclination of her head in acknowledgement, Luna opened the door to her room and stepped aside to allow entry to Twilight which was standing behind, before she shy the door and soundproofed it against any prying eyes and unwelcome ears.

Several moments passed before awkwardly, with Luna waiting patiently and Twilight scuffing a hoof on the floor before she let out a sigh. “Princess......” she paused. “Princess Celestia has asked me to run a few tests to make sure that there will be no dangers to Equestria, or to the health of the foal,

Luna took a slight step back, Maternal instincts causing her to glare at Twilight for any signs of suspicion, before she regained her composure, knowing it to be for the best interests of everypony.

“Very.... Well” said Luna tentatively, before setting Nightshade down on her bed to prepare for Twilight to work.

Letting out a breath she didn't know she was holding, Twilight stepped towards the bed and began to magically scan the sleeping foal for signs of any out of place or otherwise insidious magic's. The first thing that struck Twilight was that she had now identified the four magical signature, belonging to that of the foal before her. Getting over a brief startle she began to dig deeper, gaining more and more in depth information. Magically, the foal  would be more capable than most, understandable due to his nature, and in time he would be mighty indeed with the correct training. Further she delved, this time deeper and into the more scientific areas of the body, viewing the DNA of the foal. What Twilight saw shocked her giving to what was known about the incident, told to her by Princess Celestia. Eyes widening in surprise, Twilight quickly finished up her checks, ready to get the last pieces of data to present to Princess Celestia.

Cutting out her spell, Twilight turned to Luna (who was hovering (Not in the literal sense) worriedly over her shoulder) to reassure her that everything with the foal was okay, before she left the room with hardly contained energy of both a nervous and excited nature. Going back down to the Medical wing she pulled out the folder of Luna's recently deceased foal and checked in correspondence to what she had just learned. Letting out a gasp, she quickly placed the folder in her saddlebags before making her way to the morgue.

Nearly as fast as she entered, Twilight left the morgue, and then the medical wing to go back to her room. Now she had all the information needed to present before Princess Celestia on what had happened in the room on that night.

~~~~~~~~~ The next day, Celestia's Bed chambers~~~~~~~~~~~~~~

Twilight entered into Celestia's bedchamber's, an empty cushion appearing before her as she took in the three other occupants of the room, the three other Princesses of Equestria Celestia, Luna and Cadance waiting patiently for the information which she had managed to gather surrounding the events of the past days.

Taking a seat, Twilight brought forth her notes before clearing her throat to begin. “From all of the data which I have accumulated over the past few days, I have concluded that there is a 0.7893% of Nightshade causing any harm to others and a 3.26% of causing harm to himself whilst growing to adulthood.”

“Though there was another more...... startling revelation” she nervously continued.

Shuffling her notes and scuffing the floor slightly before she continued after her pause.

Turning to Luna she paused again before speaking out her point.

“Genetically the foal is yours Luna”

Flinching back in shock Luna blurted out her words

“Wha? But..... how?”

“I also checked on the.... Lost one and found him to no longer be there”

Luna stood staring blankly at Twilight's latest revelation, her mind running through various scenarios over what could have happened to her birthed child.

Twilight continued oblivious to the stare she was getting, slipping into her scientific mannerisms to further explain the situation.

“I can only conclude that the magical “incident” in the infirmary must have somehow fused both the creature and your foal together into one body, the form of the foal and the soul of the creature. This could explain the slight differences in appearance as well as the genetic relations. So far this is only a theory, and I'll need to run a few more tests to be certain, but I'm fairly sure that this is an accurate recanting of this particular part of the mystery."

The other occupants of the room were wearing looks of shock on their faces after what they had just been told, all except for Luna who was still looking on in disbelief.

Celestia was the first to regain her composure, her speaking up allowing Cadance to regain her own.

"I think it would be best were we all to retire to better digest the information we have been given."

Turning to Twilight she spoke again

"I'd like several copies of your final notes so that we can study this when we are able to try and draw anything more from this data that may help us in the future."

Nodding in confirmation, Twilight stood up, along with the other members of the room, Cadance helping Luna to her feet ready to escort her back to her room.

Luna and Cadance left first, followed closely by Twilight before Celestia closed the doors with her magic and climbed into her bed.

Letting out a sigh she mulled over what had been revealed to her before wondering what these recent events would do to affect the world and the effects that would be caused by Nightshade himself.