First, the amount that could apply to the self-employed health insurance deduction is the amount you paid for the premium and does not include the Premium Tax Credit.
And you can only use it up to the amount of net profit of your business, so you may find that helps the decision.
Also, you can still enter any additional premiums such as for vision or dental that are not included in the plan on the Form 1095-A. So you could link one business to the Marketplace and put the dental premiums on the other business.
If this does not completely solve the problem, please let us know more details, so we may better assist.
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