Maybe they have this new concept, that they really like and plus they want to have MKC everyday (i.e. including weekends) so they'll put this first.
They might end up having this story after Vaishnavi find her purpose or whatever or it can be linked like you said, whoever harmed Arpita might be the guy who is involed in the Yash story. They might be combining the 2 stories into 1.
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Hi - Arpita and Yash were married, so they are the same story.
Sanyukta and Gautam already destroyed all the papers at the orphanage so that Munna Bhaiyah would not be implicated in her disappearance.
Many people think that Arpita as well as Vansh's Dadi are still alive and that instead of dying, they left together.
But, we thought that this story would be explored after Vansh returned from the dead. I don't have hope that they will return to this story after Vaishnavi discovers her purpose!