Your concern seems to be the way the transfers are showing up in reports. The trick there is in the report settings. Any/all accounts' transactions can be included in a report, but they can also be listed as a category. Select all accounts that have transactions you wish included in your report, but when you select categories to report, unselect those same accounts. That way all your accounts are an internal part of the report, rather than being reported as an outgoing external category. So if you are tucking some money away into a separate vacation account monthly, you would want to show that account as a cash flow destination, therefore deselect including that account as an account, but select it as a category, but if you use a couple of different accounts to pay different bills, they should be selected as accounts to include, and deselected as categories.
Thanks guys, I'll try to think this through. Glad I didn't choose to be an accountant! Problem is that the transfers are not schedule, but ad hoc. And come and go out of our regular chequing and investment accounts, and between a Canadian and USD account. So I can't just excude an account. But I will study this, hopefully on a rainy day.
@Wendy: For ad hoc transfers, you absolutely are best to enter then into Q manually using the Transfer function before downloading the transfer from your bank. It works smoothly.
For example, when I pay my monthly credit card balance, I use the Transfer function in Quicken to create the transfer between Quicken accounts right after I schedule the transfer / bill payment on my bank's website. When Q later downloads the pair of associated transactions (even though they are from different banks), it correctly matches them to the respective ends of the transfer.
It is really quite simple. If you are making ad hoc transfers, enter the Transfer in Q using the Transfer feature immediately upon making the transfer at the bank (or scheduling it through the bank's website.
The reports issue is a red herring.