Author's Note

All the events mentioned here happen within their canon episodes. This part gives more context for some of them, going into what happens during them.

Aftermath

After a thousand years, the spell had worn off. Chrysalis was no longer a statue. She looked around and noticed she wasn’t in Equestria anymore. She took off, flying around the place. She sees a giant dog with three heads.

“Well isn’t that a hideous creature.” she thought to herself.

She then sees the exit. The dog was guarding it. Chrysalis flew toward the dog and transformed into a dragon and breathed fire at it. The dog got out of the way quickly, but was than slapped by her tail. Chrysalis turned back to her normal self.

She hears someone call out, “How did you do that? What are you?”

She turned her head around to see a small and old centaur-like creature chained to the ground.

“All you need to know is that I am a Changeling.”

The dog got back up and was charging at her. She turns into a bird and flies all around the three headed dog making him dizzy. She then flies to the door turning back. Using her magic, she opens them and escapes. The dog chases after her, but soon loses her. He also loses his way back to Tartarus and finds himself in Ponyville.

Meanwhile, Chrysalis tries to sense for her children’s presence. She finds them within a mountain. Using her magic, she breaks open the mountain and frees her children. They all managed to return to their home undetected. Chrysalis started birthing new Changelings to make sure she had as large of an army as possible.

Queen Chrysalis leaves the hive to find good places to steal love from. She finds herself going to Canterlot. She sees a big, white Unicorn with a shield cutie mark holding a ring in his magic being shown to a pink Alicorn with a heart cutie mark.

Chrysalis could feel the love radiating off of both of them. She then has a plan. She returns to the hive and tells her children about the plan.

She creates a threat against Canterlot, which causes Princess Celestia to have Shining Armor remain in the city. He puts up a magical protective bubble around it. None of them realize that Chrysalis made it through.

Shining Armor and Princess Cadance start to get things ready for the wedding. Cadance was in her room getting prepared when she heard a laugh. She looks behind her to see herself. Before she could say or do anything, the imposter’s horn glowed a sickly green and she was blasted in the face knocking her over.

Then green fire started surrounded Princess Cadance. She screamed and cried for help, but her doppelganger merely laughed at her misery. The flames enveloped her, and in a flash she was gone, sent to the the caves below Canterlot.

“Time for the next stage of this plan. That Shining’s love would give me more power than I could possibly even dream of having,” she said to herself.

She went to the bridesmaids and them to ensure that Cadance wouldn't escape the caves before going to meet Shining Armor. She saw how his little sister, Twilight Sparkle, had raised her suspicions, but she didn’t pay much mind. She was able to convince Twilight's friends and family that she was innocent, leading them to turn against Twilight. To make sure that her plans don’t fail, she also traps her in the caves with Cadance.

Although they escape and ruin the wedding, they were too late and Chrysalis had gained the power to defeat Princess Celestia and makes Shining Armor lower the bubble so her children can feed. However, as we all know, Shining Armor and Princess Cadance’s is able to defeat them and the Changelings are blasted out of Canterlot.

After they regroup in the Changeling hive, Queen Chrysalis starts expressing her anger that their plan failed. Over time, as she’s trying to think of a new plan, she starts to lose lots of her care for her children. She has her children spy on the ponies, and she learns that Sombra was destroyed, Discord has changed his ways, and Tirek was sent back to Tartarus. When she hears that one of her children, Thorax, is a traitor, she didn’t even care. Then, she came up with a new plan.

They all manage to sneak attack and capture the Mane 6, Spike, Princess Celestia, Luna, Cadance, Shining Armor, and Flurry Heart and haves her Changelings pretend to be them. Thorax then teams up with Starlight, Trixie, and Discord to rescue them.

Chrysalis’ plan once more fails as Thorax shares his love with her and caused all the other Changelings to change their ways and share love as well. Because they did this, the throne was destroyed along with the old hive and the Changelings no longer had the fear of Sombra taking their lives away. Chrysalis refuses to change and voles revenge on Starlight and flies away.

She creates evil clones of the Mane 6 in order to control the Elements of Harmony and make a new hive. However, they try to betray her and use the Elements for their own ends, the Tree of Harmony recognizes them as fake and destroys them. With her plans ruined, Chrysalis swears vengeance upon Starlight Glimmer once again and leaves the Everfree Forest.

She tries to create clones of her old children as she didn’t have enough food to create more children. Before she could create them, she gets transported to a secret lair where she sees the centaur from Tartarus and recognizes it as Tirek. He was also with a little filly named Cozy Glow. When Sombra reappears before her, she is taken aback, but she doesn’t fear him taking away her life. When Grogar arrived, although she knew who Grogar was, she didn’t realize he was the one to kill her.

With the news that King Sombra was killed yet again, Chrysalis was both happy and scared.

Though at first, she didn’t want to bother with teaming up with anyone, after they retrieve Grogar’s Bewitching Bell, she saw an opportunity to take back control and accept the team up. She also comes up with the plan to betray Grogar.

To make sure that friendship isn’t used against them, she brings back the hatred of the different tribes. The plan was all coming together, with her getting the chance to defeat Starlight and all of Twilight’s friends. She would like to torture them rather than kill them like what Cozy Glow wanted to do. Upon seeing the Windigo’s return, she wants to let them turn Equestria into a frozen wasteland. In the back of her mind, she wants the ponies to be frozen and let whatever ones are left so they can be praised. In the end, friendship still defeats them and they are all turned to stone. This ends the tale of the Changeling Queen.

However, in an alternate timeline, Queen Chrysalis and her Changelings have taken over most of Equestria. There are only a few ponies hiding from the Changelings and they’ve become much more hostile towards strangers. This battle is still going on and no one knows who will win.