Hi MezIndustries
This is odd, however in last week of June, MYOB's Payroll Reporting Centre was malfunctioning, sending duplicate information and MYOB had to shut it down to fix the issue. This might be what has caused this for you.
Also while using the same software, when users migrated to Phase 2, in earlier cases MYOB allocated new BMS IDs for Phase 2 - they stopped doing this recently - if this was the cause the 2 income statements would not have the same amounts.
You may need to get an employee with 2 income statements to check both statements to see what the BMS ID was on each statement - this might help identify cause and solution.
Regards
Gavin