I assume that this was a long-planned aircraft change in which case seeking Indonesian and Australian Government approval is a given. It’s not a last minute task for the Flight Planners. They woukd have changed the aircraft type for slot and ground handling at which time it’s logical to suggest that requests for Government approvals would be made at the same time. Incompetence, negligence or lack of diligence is not synonymous with 'miscommunication'!