t90 question

[carcass]

I bought a 52 jeep m38a1 with t90 a1 tranny. There was a clicking/knocking coming from the tranny and when driving in 1st and second, it was loud but in 3rd there was no knocking. I opened the shift cover plate and saw two teeth of the input shaft gear were broken off. Also one motor mount bolt was sheared off and the other motor mount had a crack in it. The motor is buick v6.

Would the gear with the missing teeth cause the knocking?