I am not sure , but may be you can try this.
Go to MB5B transaction which shows material movements in plant.
in selection date put date from say 01-01-2012 to 31-12-2013
and run (in plant you can put in plant no or no of plants ) and run the report. it will show movements in all plants just do some sorting based on plant for the output displayed compare it with list of plants in system.
please check this , i am not sure if it will solve the purpose. also consult your MM consultant he will throw some light on it.