So the QB engineers are aware of the problem.  They are now calling it a 'product limitation' and it occurred during last months multiple updates.  They do not know if they will revert back to a system where payments conducted through QB Payments will automatically match again but they will be discussing at their Friday's engineer meeting.

They advised to continually use your gear icon to submit your feedback about this issue and the more often you can do that the more often it will be in front of the engineers to know that it is a big inconvenience and they may revert back to the automated match in a more timely manner.

Not an ideal answer. You would think any reversal of an amenity that allowed for us to work more efficiently would be reconsidered quickly.