You are going to get several different ways to approach this issue.  I do not use sync, I prefer to control the accounting entries in QB.

I use a third party POS, and that POS handles sales and inventory, so in QB I post totals for both sales and cost leaving […]

Resolution for 'and QuickBooks issue: 'Feedback on how commercesync, square, and QuickBooks integration work?' available: Yes.

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