Create a character style called superscript that only contains the superscript attribute.
Do a find and replace to find any text that is already set to superscript, and apply this Character style to it.
Once this is done, the Character style will override the new parapgrah style. Since there are no other attributes called out in the Character style, the rest of the Paragraph style will apply, but that text will stay as superscript.
Thank you sir, this solution saved me many hours of work.
After I changed all the text to the Paragraph style of 'Body', the superscript text was no longer superscript but it was simple to then Find/Change all the superscript Character style text.