Contributions to an HSA by a self-employed individual are not deductible from your self-employed earnings.
You would enter these contributions as 'contributions that you personally made'. They will flow to line 25 on the 1040 as a reduction to your gross income (the same effect as a pre-tax deduction).
https://www.thetaxadviser.com/issues/2017/jul/contributions-hsas.html
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