If you have filed one Schedule C on prior year returns, do the same this year. Designate all 1099-MISC to the same business without regard to the individual named on the 1099. Since both business owners appear on the tax return, the IRS will be able to match the forms to your return.
You would split the business activity into two Schedules C only if you had elected to be treated as a "Qualified Joint Venture."
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