That's a good article on the historical situation. Thanks for the link!
As you inferred, in the data fields it's important for the date to include the Gregorian (new-style) year, so that date arithmetic will not be messed up. But when you cite records in the text section of the profile, quote the date as given in the record you saw.
And remember that different countries changed from the Julian to the Gregorian calendar at different times. Most of Europe (and colonies of most European countries) was on the Gregorian calendar long before the British made the shift.