I'd love to see them come up with a solution for this as well. Ideally a payment method flag that can be filtered. The best I've come up with in the meantime is adding (EFT) to the end of the suppliers' display name so that when you're in Pay Bills, you can see who is EFT and just select those ones. If most of your vendors are EFT, then it would likely be easier to do the opposite and tag the cheque vendors with (CHQ). Just make sure to check that their their Name to print on cheques doesn't have it.
