The problem lies in the dataset itself, in the files that tell Adagio if all PJ's have been printed and/or cleared - that is why you cannot duplicate this in the other 'Companies'.

WORKAROUND:
If you are sure that:
 Batch Status report has been printed and cleared
 GL Trans report has been printed/cleared (and/or sub-ledger batch has been retrieved into GL)
 All other Period End reports have been printed that you require, then...

Go in and manually delete the posting journal files. To do this:
1. Make a good backup FIRST!
2. Close AR
3. Using MS Explorer or DOS Prompt, go to your data directory
4. Delete all the ARPOST*.xxx files (where xxx is your data extension)
5. Go back in to AR and proceed as normal

*Symptoms as above could be caused by restoring data files without deleting all files beforehand.

Hope this helps!