So I don't lose this idea · 11:29am
1) Twilight, while having tea at Zecora's house, asks about the origin of the Seeds of Truth.
2) This leads to a trans-universal venture to find Prak
3) Prak is found. Twilight asks the wrong question.
4) Rainbow Dash points out that trying to figure out the question from this answer is a bit like trying to integrate without understanding how differentials work, and Applejack points out that Prak's Answer isn't even applicable to their home universe anyway.
5) And so they all go back to Ponyville without actually finding out where the Seeds of Truth came from.