QuickBooks Desktop vs QuickBooks Online Integration

NOTE  To learn everything about the QuickBooks Extension for Desktop, refer to the landing page for documentation links, configuration steps, videos, and walk-throughs that help you set it up.

The following table compares the features and functionality of the Autotask to QuickBooks Desktop Extension to the Autotask to QuickBooks Online Integration.

Item QuickBooks
Desktop
QuickBooks
Online
Desktop Extension Comments Online Integration
Comments
Customers
Match Customers in QB Via AT Organization Name to QB Customer Name Via Autotask Account Name to QuickBooks Display Name
QB Customers to AT Organization transfer Via export-import Via integration function
Invoices
Job Level Support Using the tilde in Autotask  
Automatically Create Customers in QB if organization cannot be matched    
Map AT Billing Codes to QB Items By Billing Code Name or Service/Service Bundle name By Billing Code External Number or Billing Code Name
Automatically create items in QB that cannot be matched Optional Only under "Autotask Other" account Controlled by Settings
Batch Invoice Transfer Manual and automatic Automatic - every 15 min
Individual Invoice Transfer    
Autotask Invoice Template Several items respected Some items respected or configurable
Invoice numbering From QuickBooks Only From Autotask or QuickBooks
Write QB Invoice Number back to AT Invoice    
Tax Calculations See
Comments
US Version - Autotask or QB

QBO Tax rate name must match Autotask tax name.
QBO supports one tax per invoice line.

The US version of QuickBooks Online now supports Automated Sales Tax Calculation. refer to Set up and use Automated Sales Tax.
Sub-Item support Through special tilde "~" designation in AT  
Class Support Optional Lines of business can be mapped to QuickBooks classes Default class can be controlled by Settings
Support for Multi-currency See Comments   Multi-currency is only supported for the Invoice Transfer app.
Populate Paid status back to AT Date Paid  
Expense Reports
Expense Transfer Class mapped to a Department if not associated with a Line of Business. Only reimbursable expenses are supported. The Autotask Expense Sync app for QuickBooks Online does NOT support non-reimbursable Expenses. Manually Importing Expenses into QBO is not possible. You have to manually enter them one expense at a time. Refer to Import Expenses to QuickBooks Online.
Purchase Orders
Purchase Order Transfer    
Inventory
Inventory Sync Via AT Product Name  
Import Inventory from QB to AT Through generic export-import  
Payroll Summary
Payroll Transfer