Continuity mistake: When Kay-Em jumps on the platform while attacking Jason, she is shown crouched down and says "Hey." and she is missing her black latex gloves, but in the next shot the gloves are back on. (01:03:30)
Continuity mistake: As Kay-Em repeatedly kicks Jason, between shots the amount of blood on his machete varies. (01:04:00)
Continuity mistake: When Jason is sneaking up behind Crutch, the position of his headphones changes between shots. (00:40:00)
Plot hole: When Professor Lowe calls Dieter Perez to tell him about his findings on Earth 1, Perez makes note that one of the viables was named Voorhees and deduced it was Jason Voorhees. How did Lowe know it was named Voorhees? 1) Rowan at the beginning acknowledged she had yet to prep the chamber which means no paperwork. 2) The students found no paperwork when they found the chamber and had no time to look for paperwork once they realized they needed to get Rowan to a lab to save her right away. 3) Rowan did not give him Jason's name when she first woke up. This is obvious in the scene after Lowe talked with Perez he was talking to Rowan and she brought up the story about Jason and he acted like he never heard the name before. So there is no way for Lowe to know Jason's name for his report to Dieter.
Revealing mistake: When Sgt. Brodski gets a spear through him, Jason pushes it through the wall and passes into Brodski's stomach. You see him lift himself up off of the wall and the spear in his stomach lifts up as well. (00:47:40)
Continuity mistake: When Rowan is stabbed by Jason she slides down to the floor and freezes sitting up. She remained undiscovered and undisturbed for over 400 years until the scientists find them. So how did she end up lying on her back covered up by what look like exhaust tubes? Aside from the unlikelihood of no-one stumbling across her for all that time.
Plot hole: In the beginning of the movie, Lexa Doig's character and Jason are frozen in cryogenic stasis. Considering how important Jason is to scientists, why did no one arrive to check out why no one or nothing was occurring in the research facility until centuries later?