You are using the correct version. It sounds like you are reporting both types of income as one business. What you need to do is create a separate business for the non-ministry freelance work you do. When you first set-up your minister "business" you would have entered business code 813000, which would result in the program asking questions about your housing allowance and Form 4361 & 4029. Your answers to these questions made your missionary income exempt from self-employment tax. You need to create another business with a different business code.
To add another business, while working in TurboTax Desktop, Home & Business:
- Click on "Business"
- Click on "Business Income and Expenses"
- Click on "I'll choose what I work on"
- Next to "Business income and expenses" click on "Update"
- Click on the "Add Another Business" button
- Continue, and the program will guide you through creating another business
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