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Was conversion from automatic

YouTube "centering bell housing " for instructional video

Remove clutch and pressure plate. Reinstall bell housing. Attach dial gauge base to flywheel. Set pointer on inside of bell housing transmission hole. Rotate engine which will rotate dial gauge along inside of bell housing hole. Check for runout

Check for runout. Use dial gauge on flywheel and with bell housing mounted check that hole in bell housing is centered.

I would try dialing in your bell housing. Seems like it may be offset.