William, the star-child, human-alien hybrid. He is a mystery, just like the spooky details with aliens having psychic powers. I don't know how long it will take, but eventually I believe that we got to bottom of this mystery.
If you look into UFO history, the hybrids haven't ever been as good looking as William. Often they've been abductees has described them as close resemble to aliens rather than humans. Also as often those star-childes has been wielding other worldly powers like telepathy, telekinesis, and clairvoyance. But, as often as they'd reported there is almost always so sort of UFO activity, making us think that the aliens somehow track these extraordinary people.
What bugs me with this episode is the fact that they didn't string the series episodes together. Instead they continue from where the season pilot ended. Mulder isn't wearing the glasses. Scully isn't talking about the marriage and episode is disconnected from the past. But, even then, the final is good one. The story flows nicely and there is no moments where you'd like to push fast forward.
The most intriguing detail is shown after the title run, where Mulder infiltrates place that we would known as a black site. It is a nation-state facility usually running hightech propulsion programs, and as always the site is closely guarded by the infamous camodudes (see Area 51 force-protection teams AKA the camodudes). Back in the eighties they were reported to be Delta's, and back then, they were guarding Nellis AFB sealed hangers and rumoured underground facilities.
Only in Mulder's case, there is no such thing as the boss is sitting comfortably in his chair above the ground. He doesn't blink, just raises his head after he hears a firefight and see Mulder forcing his way into the office. He reveals that most people would kill to be the star-child.
But that might be just his own opinion as the general public are quite comfortably happy with what they got. William might never know that life. Not when he's hunted by everyone and their dogs. The only logical reason I can form is that William can be used an avatar. Maybe even as soul vessel if the alien has developed machine that transfer souls from one body to another.
With his powers already activated the alien might even feel homey in the host body. CSM is dying and therefore, if the theory is true, M&S's son is the only way to save his life so that he can carry on with the alien agenda. So, why the aliens aren't using their craft to track him? I don't know.
It might have been easier to track him than sending the Men In Black after him. Some people believe they're failed hybrids. But for the theme they fit like a glove in the Alien Agenda. So what next when CSM shot William and Mulder executed him in the rage?