If you are using the Online version you will have to go though the business section and enter all the totals on the interview screens. And hopefully come out with the same Net Profit or Loss as the accountant's schedule C. You don't need to enter the SE. Turbo Tax will automatically fill out SE based on your schedule C entries and any W2 entries you got.
If you want to switch to the Desktop CD/Download program you can enter your figures directly into Schedule C on the actual schedule C. We can tell you how to switch.
