7 years later

India has gained independence and the British officials have left. Gayatri's and Ranaji's daughter, Rani, grows up under Rajmata's care. She goes to the royal palace to work as a servant and befriends Raja, Jeevan, and Bindu. Raja and Jeevan are Kaal's sons, and Bindu is Swarnalekha and Lakhan's unaware daughter. Kaal has become the King. Badi Rani Maa gives Rani series of tests, such as to come down from a tall point, to play a game of snakes and ladders involving riddles at every ladder, and also the test in which Rani had to give away her salary so that the other servants can get their salary. All these test is because Rani challenged Badi Rani Maa to stop her injustice against the servants of the palace. Meanwhile, Rajmata suffers from tuberculosis. When Badi Rani Maa realizes that she is losing her grip on Raja, she decides to play her old game - being nice in the front to her enemies, while backstabbing them in the back. Raja and Rani are separated during their childhood due to the plans of Badi Rani Maa. Raja is accused of terribly beating Jeevan (Rageshwari's son). Because of this, Kaal sends Raja to a boarding school, where he is maltreated. Rani leaves Amerkot along with Rajmata after the deaths of Lakhan and his love, Swarnalekha, as planned by Badi Rani Maa. She kills Lakhan with a knife and shoots Swarnalekha with a gun, as they are on their way to find Rajmata and Rana and Gayatri's daughter - Rani, who Badi Rani Maa is unaware of her identity. Since Raja is in the hostel, Badi Rani Maa uses the opportunity to turn Raja against Kaal, saying that Kaal doesn't want him to come home. Raja hates his father. He also hates Rani, as he believes that it is because of her he got sent to the boarding school. Badi Rani Maa also tells Bindu to be writing letters to Raja telling him how much she cares for him. She also tells Raja not to allow any girl like Rani to come into his life ever again.

Meanwhile, Rani and Rajmata are in another town. They work in a hospital. Rajmata then becomes seriously ill because the tuberculosis has spread all over her body. She then undergoes operation. She survives it and she lives together with Rani and a nurse from the hospital. Rani wonders when she will get the chance to meet Raja in order to clear up their misunderstanding.

10 years later

Raja and Rani meet again in college. This time, when Raja meets Rani, he starts to create trouble for her as he believes that Rani was responsible for sending him to a boarding school. However, they gradually fall in love. On the day of their wedding, Raja finds out that Rani is Ranaji and Gayatri's daughter, and they were murdered by Kaal and Badi Rani Maa, but they marry anyway. Raja imprisons Kaal and Badi Rani Maa dies while trying to kill Rani. Bindu is also arrested. Rani avenges her parents' murders.

Some months later, Nawab Iqbal Khan enters their life bringing a new challenge for Raja and Rani. He accuses Raja of killing his fiancée Zahira. Later it is revealed that Jeevan was the one that killed Zahira. But only Jeeves/Jeevan (Raja's brother) and Shusti (Raja's college friend) knew about this secret, since they were the ones that buried the lady. They lied to Rani that no accident took place. Although Shusti wanted to tell the truth, he was threatened by Jeevan. Iqbal decides to punish Raja by shooting him at a cliff. Raja then falls down the cliff in Rani's presence.

4 months later

Raja returns, saved by Bindu. He sees Rani and Iqbal together. It is then revealed that Rani is pretending to love Iqbal to avenge Raja's death, unknowing that Raja is actually alive. Meanwhile, Raja seeks revenge from Rani and Iqbal, disguising himself as Angad, Bindu's husband, but Rani recognizes him. Iqbal continues to plot against them, and Raja starts to hate Rani. Iqbal forces Rani to shoot Raja against her will. As Raja runs away from Iqbal's goons, he survives as he is saved by a don. Raja begins illegal work for the don, in which he harms three police officers. Iqbal takes Rani along with him in his car to see the weak "Raja". They spot Raja near the ocean trying to kill himself with a gun. Rani takes the opportunity to cause an accident as she drags the steering wheel with Iqbal. Iqbal dies in the accident and Rani dies in a hospital. Raja falls in bad company and becomes associated with criminals, still believing Rani deceived him and unaware that she is dead.

10 years later

Raja is now a don in Mumbai and starts to live with Laila, the daughter of another don. Naina, Rani's look-a-like, is a junior artist in films and lives with her mother and sister. Raja thinks that Naina is Rani and starts to hate her. On the other hand, Vijay, a police officer, likes Naina. Raja learns that Rani is dead and that Naina is her look-alike but still dislikes her as she reminds him of Rani.

Gradually, his attitude towards Naina normalizes and a love triangle develops. On the day of his wedding to Laila, Raja calls it off. Laila blames Naina. Naina encounters Rani's spirit that helps her prove to Raja that Rani was innocent and sacrificed herself to avenge him. Vijay tries to rape Naina and breaks her legs. Laila uses this to try and defame Naina but Raja marries Naina to protect her. Laila attacks Naina on several occasions but finally dies, as she is eaten by crocodiles in the water - a trap which she had set for Naina.

Raja thinks he's getting a fresh start in life and starts to love Naina and takes her on a honeymoon to Goa. Here, he meets Rani's spirit, who now becomes a ghost and has turned dark. Rani wants Raja to unite with her in the spirit world. Rani's spirit is revealed to be controlled by Badi Rani Maa's spirit.

All the inhabitants of the palace come to know of the return of Rani and Badi Rani Maa. Badi Rani Maa attacks the family of Priyamvada on several occasions, as she had told Rajmata that she wants to play with them for a few days before she kills them. Her attacks range from making Naina to dance, trying to turn Naina to stone, putting Vikrant (Laila's younger brother) in a box, trying to kill Priyamvada, locking Naina in a bottle, etc. Priyamvada is able to rescue Rani from Badi Rani Maa spell, as she helps Rani to attain moshka (salvation), and Rani goes to the spirit world. Finally, with the help of the priest, they are able to trick Badi Rani Maa that Rajmata is dead, as Rajmata decided to lay down her life for Raja and Naina to be spared by Badi Rani Maa. Raja tells Rajmata to leave for America in the morning, so that she can be safe. In the final episode of Badi Rani Maa's attacks, she returns to the palace in the morning, infuriated how Rajmata put up a very great performance to trick her. As she tries to enter into the palace, she is unable because the priest told Rajmata and her family to tie a thread around the doors and windows of the palace. Queen grandmother still tries to get in but ends up losing her powers. She goes back to meet the witch doctor that brought her back to life to give her more power. She returns to the palace, and the thread can no longer stop her. This time, she wastes no time in executing her evil plans. She immediately disguises herself as Raja and leads Naina into a trap, where she stabs Naina in front of the real Raja. Then she also stabs Raja. She makes Naina's mother and Rekha (Naina's sister) to hit their head on objects and fall down. Rajmata arrives at the scene to see Naina and Raja on the ground. Badi Rani Maa then makes Raja to strangle himself. The two die holding hands together. As Badi Rani Maa celebrates, she slips on Raja's blood. She then remembers the words that the witch doctor told her that if an honest man's blood touches her, she will lose all her powers. She still rejoices as she fades away. Rajmata cries as Raja and Naina are dead. She tries to kill herself with the same knife but the priest stops her. She tells the priest to bring them back but he says he cannot since he cannot decide one's destiny. Rajmata tells him not to preach about God to her.

The priest tells Rajmata that Raja and Rani are destined to return to prove that nothing is more powerful than true love.

20 years later

Raja and Rani are reborn as Raj and Rani. Raj is appointed the security guard of Rani to her dislike. When her wedding is fixed to Kundan, she asks Raj to abduct her. Raj and Rani end up in Amerkot, and Rani feels a strange connection to the place. She finds Rani Gayatri's diary and pursues Raj. Raj is then told to kill Rani to save his brother Dev who is being held captive by Rani's aunt, Anandi. Raj explains his situation to Rani but doesn't reveal Anandi's identity.

At home, Rani fakes her marriage to Raj and saves both Raj and Dev. Anandi is revealed to have killed Rani's father and is sent to prison. Rani agrees to marry Kundan, who wants her money and plans to leave her behind after marriage to live in London. Anandi is released and also wants Rani's wealth.

Raj reveals Kundan's intentions to Rani and her mother, who thank him. Rani and Raj fall in love, but her mother gives him three months to prove his love. Rani convinces Raj to visit Amerkot, where they find a painting of Raja and Rani and Badi Rani Maa. Rajmata reappears and tells them that this is their rebirth.

Badi Rani Maa (Queen Grandmother) returns to the palace once more. This time, she returns with darker magic. She now has minions, which attack Raj and Rani before she later reveals herself to them. She engages in a faceoff against Raj, Rani and the priest that told Rajmata about Raj and Rani's rebirths. Everything goes well as the priest puts a shield around them to shield them from Badi Rani Maa's attacks. Rajmata stands next to Badi Rani Maa and watches everything.

But things take an unexpected turn when Badi Rani Maa disarms the shield protecting them. She then throws a knife at the priest and a spear at Raj. Badi Rani Maa tells Rajmata that hatred still wins over love. As she tries to throw a spear at Rani, the priest wakes up, and the shield is established once more. Rajmata then sprinkles holy water on Badi Rani Maa, and she disappears. The priest dies while Raj is taken for medical attention.

Badi Rani Maa sends an arrow to Rani with a note telling her that the cure to a witch's spell cannot be found easily, that if she wants witch medicine, then she must give something to her in return for Raja's life. Rani and Priyamvada go to meet Badi Rani Maa. The Queen grandmother tells Rani to give her the holy water in exchange for Raj's life. The Queen mother tells Rani not to do it, but she then accepts. When Rani gives the holy water to Badi Rani Maa, she (Badi Rani Maa) begins to laugh and breaks the bottle of holy water on the ground. Priyamvada falls to the ground. As Badi Rani Maa is making some chants, the Queen mother gets up immediately (meaning she was pretending) and brings out the real holy water which she had hidden in her clothes and begins to sprinkle it on the Queen grandmother. Rani then cuts Badi Rani Maa's choti (plait/braid) i.e. her hair, totally killing her. Raj later recovers and they return to the palace.

After defeating Badi Rani Maa, Raj and Rani get married. Raj later discovers that it was Rani's mother that made him and his mother's lives miserable when he was young. He now decides to tell Rani all of this by showing Rani his home, mother and sister. He tells Rani that her mother was also responsible for his father's death when he was a child. Raj then throws Rani off the cliff. Raj thinks he has won as he has property papers which he tricked Rani to sign as an insurance document, stating that all of Rani's properties is his. But because of the rain storm, the signatures of Rani is cleaned from the property papers. Raj becomes sad. At the palace, Rani's mother receives a phone call that Rani has been found. As they meet her, they realize that she has lost her memory. They try to bring Rani's memory back. Rani brings Raj's mother and sister to the palace. Rani finally regains her memory.

Later on, Rani gives birth to twins, but one of the twins was kidnapped by Vasundhara, a woman who is an enemy of Raj and Rani. Raj and Rani leave their other child Siddhi and set out on a journey to find the missing twin Riddhi. As Raj is driving the vehicle, Rani begins to lose hope as she tells Raj that it has been a day and they have not found Riddhi. Raj tells Rani that they will find the child. As Raj tries to convince Rani not to doubt, they engage in an argument. This results in their vehicle hitting a tree, which then explodes, killing them.

18 years later

18 years later, Raj and Rani's daughter Siddhi has become 18 years of age and is given a book with the title (Ek Tha Raja, Ek Thi Rani) as a birthday gift from her grandmother. Her twin sister, Riddhi, who is still alive, is shown with Vasundhara, the woman who kidnapped her when she was a baby. Riddhi is seen stealing money from a place and beating up a police officer. She sings happy birthday to herself as she walks away from the scene of the crime. She presents the money to Vasundhara. Meanwhile, Siddhi's coronation as the Queen of Ameerkot then takes place in the palace. As the priest hands the staff to her, she rejects it and goes to her parents' pictures and offers prayers to them. She decides that Ameerkot no longer needs a queen. The serial ends with her in front of Raj and Rani's pictures.