Hi Miguel,
This largely depends on your initial setup. In short: if this wasn't considered from the start, it will be extremely difficult to implement later.
You would need to manually edit the objects, their counts, basin areas, routing connectivity, and more. Without in-depth knowledge of the SWAT+ I/O structure, I would say it is impractical. I highly recommend looking over the modeling protocol and implementation handbook, which discusses this exact challenge: https://zenodo.org/records/11232719, https://zenodo.org/records/7463395
Of-course, you can always take on the challenge and try it out :)
Best regards,
Natalja