As someone who owns and loves the entire Friday the 13th series I would say Jason Takes Manhattan isn't even my least favorite movie in the series. I think the honor goes to Jason Goes to Hell that tries to explain the origin of Undead Jason as a corpse inhabited by a Satanic tapeworm that can change host and that can only be killed by The Evil Dead dagger by someone from the Vorhees blood line. The opening scene and the ending which planted the seeds for Freddy vs. Jason are the only decent parts.
I'm not going to say it is the best in the series because for me that is a toss up between Part 2 and 4. Part 2 is genuinely scary and Part 4 contains the infamous Crispin Glover dance scene.
Jason Takes Manhattan has one of the goofiest kills of the entire series.