A interesting aspect are the religion and culture. The Spanish had been there for a century, I would think the Ming would have a hard time getting rid of Catholism after such a periode (not impossible, but really hard). We also have the Jesuit universities on Phillipines.
Koxinga's own relationship with Christianity is interesting. While he persecuted the Dutch missionaries on Taiwan, several of his family members converted and there was a shrine to the virgin mary in his home.\
Edit: In fact, one of Koxinga's confidants was an Italian Dominican. So...