The first battle against Queen Chrysalis wasn’t enough to defeat her. And now, after 20 years since Twilight’s coronation. The Changeling army re-emerges. With stronger and larger numbers than before. In mere moments, the changelings Invade, Imprison, and control Canterlot.

The royal sisters, magically ensnared and caged are watched over by Chrysalis herself.

“Mwa, ha, ha. I can’t believe that the ‘Rulers of Equestria’ where this pathetic and weak.” Chrysalis belted, her lips forming a smile large enough to present the black gums of her teeth.

“Honestly. How is the light of the kingdom even suppose to ‘protect’ her loyal subjects, when she can’t even defend herself?
And now I rule all of Canterlot. And soon, Equestria. Don’t even bother to escape.
I’m prepared this time.” She said, shocking her hopeless victims with a spell.

Outside the castle, a spell had been cast. And anypony unfortunate to step in its area of effect were instantly mind controlled.

“Hey, Luna?” Celestia, barely conscience to talk.

“Yes sister?” Luna replied.

“I’m sorry we barely got the chance these past few decades to finally start understanding each other.

But our kingdoms only chance of survival”…

“Is that spell. Isn’t it, sister?” Luna interrupts, finishing the sentence.

“What happened to your manners Luna? I thought self image was important to you?”

“Guess I’m starting to be more open, huh?” Luna replied.

“Ah!” The sisters scream, being electrocuted again.

“What’s this I’m hearing? And how exactly do both of you plan to stop me?
I have rendered your magic useless. You don’t even have your cutie marks anymore.”

Both sisters turn towards Chrysalis. Looking at her with a glaring scowl.

“Our duty is to protect our subjects and our kingdom.” Said Celestia.

“At any cost!” Shouted Luna.

The pairs eyes glowed an intense white. The spell that was keeping them bound soon faded.
A magical cloak appeared behind them. Showing the opposite of their perspective time periods.

Celestia having night. And Luna, with day. Thier left eye then turning pure black.

“If we are to die. Then we will take you with us!” Celestia proclaimed.

“You wouldn’t dare! What would your subjects do if they knew you two died attempting to destroy me.” Chrysalis challenged them.

“I believe our subjects will make the right choice for a new leader. Sadly, I can’t say the same for you.” Celestia threatened.

“Ready Luna?”

“Yes sister!” Luna replied.

A blinding light erupts from the castle. Up in the sky, the Sun and the Moon can be seen merging together. The Moon in front, starts glowing an ominous white. The ring left from the Sun's rays became a grim black with a crimson shadow resonating from it. The spell was finally complete.
And in an explosive fury, an expanding wall of magic launches from the combined celestial bodies.
Slamming into the planet, covering it in an inescapable field. It then began to collapse inwards to the planet. Passing through every object in its path. The spell then blasts into a flash of piercing white.

Twilight Sparkle was in her throne, shocked and confused. The other five looked towards Twilight for a possible explanation to what just happened. But before she had the chance to say anything.
Her eyes shined with the glow of white. The cutie marks of both rulers soon appeared on Twilight’s flank. She then gritted her teeth to fracturing. Tears shedding from her illuminated eyes.
Her mane and tail began surging with intense magical energy. And the throne she sat on quickly became cracked and broken. Before her friends had any time to react, Twilight blasted off in an angered flight. Smashing through the castle walls. Not even Rainbow Dash was able to catch up.

As Twilight reaches the Canterlot castle and crash lands into the main hall, the only thing she’s able to find was the royal decor of the sisters. And as Twilight's suspicions became true.
She screamed the hardest she ever had, blasting apart every window in the castle. And cracked it into pieces.

“NO! NO! NO!”

A week after the incident, Twilight was named the ruler of all of Equestria. A significant amount of time has passed. She’s now in control of the school for gifted unicorns. And Twilight has grown fond of a pair of twins. Who she soon makes them her own protégés.