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Intacct Best Practices: 1099 Line Items doesn't support selecting form1099 per bill line item. You'll need to edit each account to be used on form1099 bill line items, in order to signify them as 1099: 

    1. Hover over the gear icon, and then click Support
    2. Under Accounting, click Chart of Accounts
    3. Click the account name
    4. Click the edit icon
    5. Set the 1099 Category to any value other than None
    6. Click Save
    7. Sync again
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