The knocking subsides slightly when clutch is depressed. Also, all gears work, sound is much worse in reverse, than forward gears, tranny was leaking, I found after the fact(stain where it was parked) so possible tranny had low or no fluid. So possible it's just the tranny.
update: it was a flywheel bolt that had sheared off and was doing its best impression of a brick in a washing machine inside the bellhousing. not a rod knock at all.
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