Punisher said it himself, DD is faster and a better fighter. But then he said something like "I can take it. I'm a house." Which really holds true to Frank's character. If it fits into his plan, he'll take a beating. He got his ass handed to him by Daredevil, so now DD will think that he's laying low and recooperating, which is far from the truth.
Punisher will kill DD in the end and he'll never return to the marvel universe, maybe as a ghost or maybe even a new ghost DD, or maybe they will do a series with DD taking on demons in hell and even kickboxing with satan...all that matters is that punisher finally killed that punk ass, blind sob...