The build-up for the story was really nice, but the ending... well, it feels like you just ran out of time, which from what you said seems to be the case.
For presentation, I really liked the cutscenes, except the one where Basil tells Manes what happened to their friends. It used a very different style for the characters and seemed really goofy for what was supposed to be a serious scene (other than the monster, which was fine). Everything else is a mismash of different asset styles that had some effort taken to mesh together better and it works decently well. I really like what seemed to be parallax backgrounds for the floor areas and such. The reception area in the port looks really goofy though, as you used wall tiles in place of ceiling tiles.
There were some map transitions that were confusing, such as the way to the church and back. The graveyard in particular could just have more than one transfer tile that would lead to the same place. The puzzles were ultimately fine, even the sliding tile one.
Anyway, I really wanted to see this story completed and the current ending has it end badly just when it gets really interesting. I don't know if you intend to continue this story or make a sequel, but I'd certainly play it if you would exist!