we swapped the one motor mount bolt around to the driver's side, and the passenger side was off by the same amount.
its not so much an up and down issue - we could lower the engine a bit still, but it didn't help, the mounts are basically 1" too narrow as they are mounted. the only way to adjust the overall width between each lower mount is to move them upwards on the frame mounts - but i can't move them that much. i'd be elongating the holes instead of drilling new ones... not a good way to mount a motor.
ray - you can't swap them side to side.. the plates are directional, they can only be mounted on one side. i suppose i could swap the motor mounts from side to side - is that what you mean? i don't think it would make a difference though. i've got the motor mounts out, and sitting side by side, they look completely identical.
my theory is the ORD motor mounts weren't meant to be used with an adapter plate, so the adapter plates are keepin them from lining up?