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 change order'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 change order line item should be billed against.