He seems to be a pretty understanding guy. I'm sure if you continue communicating your feelings with each other, things will get much easier.
Most parents seem to see their sons/daughters as kids their whole lives. It's just parental instinct I guess. These feelings are probably more intense and overwhelming for him, because you've been out of each other's lives for so long. He has a lot of lost time to make up for. Chances are he's so happy to have you around again, he's getting a little over enthusiastic.
I've been in touch with my dad my whole life, but we rarely see each other, maybe once a year or something. Even so, he still gets all paternal and over-protective at times. Over the last few years, he seems to have come to terms with the fact that I'm an adult and he's easing off now.
It doesn't get me mad or annoyed. I thank my lucky stars I have my dad in my life.
Give hime time and try and be as patient as you can.