Continuity mistake: In the episode "The Web", the tarantula has Cheetor trapped in a stasus web that sucks the energy from his life force and is viewed on a machine. A couple of scenes later, Cheetors life bars are very low on the machine, but when Rattrap comes to save him, the bars are full again, although Cheetor is still dying.
Continuity mistake: During the battle at the beginning there is a shot of Tarantulas and Waspinator appearing with Megatron commenting on how reinforcements have arrived implying that they had just got there. The problem is, the previous episode already established them as having arrived before the battle had begun, and they had even been shown fighting before their suppossed "arrival" mid battle.
Plot hole: Series 2, Episode 11, The Agenda (1). The Tripredacus Council explains that Ravage will be able to find Megatron and the others by tracing the transwarp wavefront back through time to its source. If he truly did follow it back to when it started he would have arrived moments after Optimus destroyed the alien weapon in "Other Voices: Part Two" which created it, yet he arrives considerably farther in the future.
Factual error: Megatron tells Ravage that the Golden Disc was launched aboard the Voyager spacecraft, just as the Great War between Autobots and Decepticons began. Either Megatron is wrong or Cybertonian history is wrong, because Voyager was launched in 1977, and the Great War didn't begin until 1984 (the first season of The Transformers), seven years later. The disc can be read by lasers, but it was in fact an analog recording (as digital recording did not exist until the early 1980s with the compact disc). Just as well, the disc was only twelve inches wide; it looks much bigger in Beast Wars.