To fix your payroll reporting, be sure that the paychecks you have recorded don't use earnings items. Instead use Addition type item that is configured with None as the tax tracking type and which doesn't impact any taxes and (probably) uses an Equity account.
QuickBooks does offer the ability to send DD orders to Vendors, which is a better way to record owner draws against their Equity. I think it's a separate service to sign up for.
If your bank offers ACH processing via a NACHA file, another option is our BRC Direct Deposit File Creator , which can be used to create DD orders based on data you record in QuickBooks, both paychecks (not for your case) as well as standard checks and bill payment checks.
