I don't think being trained by Luke gives him any advantage here at all. Plagues was the most powerful sith master of his time, trained in the traditions of the rule of two, with most of the knowledge and training of all the sith masters that have followed their line probably back to Bane. Also Plaguies trained palpatine, and palpy prob got at least 80-90% of knowledge from plagues having been his apprentice til around the end of phantom menace.
Also for all the many strange force powers jacen knows not many of them are battle oriented powers. His power to communicate with animals, or make himself small and undetectable in the force probably won't help him much. It's not like he's gonna be flow walking anyone to death or anything, and this fight isn't on his ship so he has no vines/tentacles, or vong organisms to control, jacens daughter isn't here so he can't take her hostage (plagues wouldn't care if he did), jacen doesnt control plagues son like ben so that wont help him, and he cant rely on family sympathy (maybe he can because plagues created Vader who is jacens grandfather so he is kind of like jacens great grandpa. so maybe but prob not). that's most of jacens best tactics right there and they won't work here.