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The difference observed in the final parts of the two quotations in the Kasayapāhuḍasutta is due to the fact that one mentions the ownership of the gross region of mithyatva - satkarma, while the other mentions the ownership of the gross pain of jñānavarṇīya karma. The Vedanakhaḍa describes the ownership of pain by the eight root karmas, not by their after-effects. However, the Kasayapāhuḍa mentions the ownership of the after-effects of only one karma, moha karma. Therefore, the commentator has explained the difference in their ownership as much as it should be. The above mentioned sutra of Vedanakhaḍa is very long, therefore, the part which has been left out is marked with xxx. The commentator has explained the omitted part in one sentence, 'Abhavasiḍḍhiyappa Oggam Jahaenaṁgaṁ Kammaṁ Kadam'. Similarly, any other minor word difference observed has been summarized by the commentator in his own words, there is actually no difference in meaning.
Jayadhavalakāra was well aware of the similarity between the above mentioned chūrṇisūtra and the Ṣaṭkhaṇḍāgama sūtra, and this is the reason why he has raised a doubt in his commentary about the specific difference observed in both the sutras and has also resolved it as follows. The part of Jayadhavala is as follows:
"Veyanāe Palidovamassa Asankhejjadhibhāgeṇiyaṁ Kammaṭṭhidim Suhumeiṁ Dieesu Hiṇḍāviya Tasakāiesu Uppaido. Ettha Puṇ Kammaṭṭhidim Sampugaṇam Bhamāḍiya Tasattaṁ Nīdo. Tado Doṇhaṁ Suttanāṁ Jahā'viroho Tahā Vattabyamidi. Jaiva Sahairiovaseseṇa Khavidakammaṁsiyakālo Kammaṭṭhidimetto, 'Suhumeṇigoḍesu Kammaṭṭhidim Acchidao' Tti Suttaniddesaṇṇahāṇuvavattido. Bhūdavalipiāiriovaseseṇa Puṇ Khavidakammaṁsiyakālo Kammaṭṭhidimeto Palidovamassa Amankhejjadhibhāgeṇūṇam. Edesim Doṇhamuvadeśānāṁ Majhe Sacceṇekeṇeva Hodavyam. Taththa Saccattaṇegaḍaraṇieṇo Naṭṭhi Tti Doehāṁ Pi Saṁgaho Kāyavyo. Jayadhavala."
That is, in the fourth section of the Ṣaṭkhaṇḍāgama, called Vedana, the karma-duration has been produced in the trembling bodies by rotating it in the subtle senses for a time period less than the innumerable parts of the palyopama. But here, in the present chūrṇisūtra, it has been obtained by rotating it in all the subtle senses for the entire karma-duration? (What is the reason for this? When asked this, Jayadhavalakāra says that) although there is a contradiction in these two sutras (āgamas), it should be resolved in a way that avoids contradiction. According to the teachings of Yativṛpabhācārya, the time period of the destroyed karma-ash is the entire karma-duration, otherwise, the present sutra could not have instructed that 'it remained in the subtle senses for the entire karma-duration'. But according to the teachings of Bhūtavaliprācārya, the time period of the destroyed karma-ash is only the karma-duration less than the innumerable parts of the palyopama. From these two contradictory teachings, the truth should be only one. But since it is not possible to determine the truth (because there is no Kevali or Śrutakevali today), both should be accepted.
The theoretical difference mentioned in the above doubt-resolution is visible at the beginning of both the quotations. Jayadhavalakāra's resolution of this doubt also...