We do not invoice. All sales are deposited into bank via shopify. Sales not showing up in line 101 for gst/qst.

You need a connector or import the sales data as Sales Receipt into QBO.

Hello marmihorowitz-ou. Based on what you've described, I see you benefiting more by contacting our support team outside of the Community. A specialist will be able to share your screen and help you get the resolution you need in a timely manner. Here are our contact details: 

• Schedule a Callback or start a Chat: click (?)Help in the upper right in QuickBooks Online > type and enter "Contact support" into the QB Assistant > click Contact Us > explain your situation > click Let's Talk > choose Get a callback or Start a Chat.
• Social Media: Facebook, Twitter, and Instagram.
• Support hours are from Monday to Friday between 9 a.m. and 8 p.m. ET.

Feel free to keep me posted here. I'll be one message away in case you need anything else.