Just got back from NYC yesterday and pizza was a huge part of the trip. I highly recommend Portnoys one bite app and research that there especially when you're in the city and seeing what's near you.
Since we hopped around the city we basically just researched what was near us at the time and did it that way. Going into it I had a list of where I wanted to go but quickly realized with traffic and the hassle it wasn't really feasible because we had certain things planned throughout our trip.
Here are the ones we hit.
Angelo's Coal Oven Pizza- excellent. And the vodka pasta we got there was also the best pasta dish we had on our trip.
Prince St- spicy square was good, but the regular cheese slice was even better
Artichokes- very good also. Down by Chelsea pier
Ray's.-yes the chain, yes it sucked, but for nostalgic reasons (movie Elf) I wanted a slice. Lol
Zeste- down by WTC/wall st. Authentic Neapolitan style. DAMN GOOD flavor and quality ingredients. Excellent desert pizzas as well.
Happy hunting.