Because the episode aired out of its original intended order, several plot lines were skewed. Booth reveals to Dr. Brennan that he was once a jock, which she already knew because they discussed it in "The Secret in the Soil".
This episode was originally supposed to air a year earlier, but was postponed due to the tragic events at Virginia Tech. As a result, Jack Hodgins' hair is noticeably longer.
Because this episode was originally supposed to air a year earlier, the title sequence is that of season two (most notably: John Francis Daley was featured in the title sequence for the last episode but not for this one).
When Cam goes to Angela, looking for Hodgins, she is working on the computer, but when she turns to Cam, she now has a pen pointed at the file she is holding. Then her arm is down by her side, then she puts the file in her right hand, but in the next scene it is in her left hand again.
Because the episode aired out of its original intended order, several plot lines were skewed. In the original unaired version of this episode, Dr. Hodgins is considering proposing to Angela when, in fact, they were already engaged in the season 2 episode "The Glowing Bones in the 'Old Stone House'".
Page takes over Manning's position, power forward, on the basketball team. Page is shorter than Booth, who is 6'1". Power forwards are much taller than 6'0".
Dr. Hodgins uses a blender (Cam's) from the staff kitchen to blend up maggots to perform a toxicology screen. This is an extremely irresponsible and unlikely way to do this in a forensics lab. This is because the blender is unlikely to be sterile, and could introduce contamination into the sample being tested, and there is other apparatus that could be used to perform this task (e.g. a lab mortar and pestle).
Booth tells Brennan a story about his jock days, saying the last time he was under the bleachers was in the eighth grade. However, in earlier of season two, we learn that he had sex with someone under the bleachers.