Bookkeeping for non-profits is a bit different than “regular” business entities, but if I understand what you are doing correctly, yes, you can turn off the preference in QuickBooks that makes all received payments automatically go into Undeposited Funds and, instead, choose the account into which you want the payment “deposited” in the Receive Payments screen.

To do that: Go to the Edit drop-down menu, then Preferences > Sales & Custoers > Company Preferences tab, and uncheck the box in the lower right-hand corner that says, “Use Undeposited Funds as a default deposit to account.

If you decide to go this route, just be aware that each payment received will show up as a single deposit into the account you designate on the Receive Payments screen, in your case, you will chose the Donation account. You will then be able to enter the deposits in the manner you have described on the Record Deposits screen.

Hope that helps.