About the vibration... did you get the flywheel (un)balanced to match the out-of-balance of the flexplate? Flywheels are normally zero-balanced, but I have read that OM617 ones are deliberately out of whack in order to externally balance the crankshaft...

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Currently converting a 1984 Toyota Land Cruiser FJ60 to use a 1985 300D engine and tranny... Engine/tranny are in, no transfer case or wiring yet.