For ERP synced projects, when you create a line item for a commitment variation (or a commitment potential variation, if using a 2-tier variation setting) and the "Line Item" section of "New Line Item" is selected, Procore creates the following items:
Since both the commitment's schedule of values and the variation's schedule of values are reflected on the subcontractor progress claim, this line item appears twice on the subcontractor progress claim:
There currently is no functionality in Procore that can hide that $0 line item from the subcontractor progress claim. When creating a subcontractor progress claim, the $0 line item should be disregarded and only the variation line item should be billed against.