In "The Story on Page One", the cover of the TV Guide featuring the likeness of 'Luke Perry' says in the bottom right corner, "If you can read this Family Guy is on the air". The gag reflects on the ever-uncertain airing of the show by Fox due to its content each week, and the writers in the second season often thought they would lose their jobs any day while in production.
Luke Perry's wife is voiced by Rachael MacFarlane, Seth MacFarlane's sister.
Brian's flashback refers to the 1992 movie "School Ties", staring Brendan Frasier.
When Brian is showing Stewie around Brown, Stewie tries to get some Sodium Pentothal. Sodium Pentothal is a depressant drug that is sometimes used in interrogations to make the people they're interrogating respond to questioning better, a "truth serum." As Stewie loves giving interrogations, that would certainly fit his needs!
Lois mentions that while in college the National Guard visited her school one day and shot some of her friends. This implies that she went to Kent State where the National Guard killed 4 students in 1970.