Yeah, I'm definitely thinking most of the military was called in to run the evac. stations at LAX, the Colony, and probably other places. Michael, Angel and Saul just never got the message because they're the only ones who made it to their base.
And now I'm wondering where those evac. stations were sending people to. I wonder if we might not stumble across a "safe zone" at some point and find out its been overrun and is now a bloodbath like Saul and Burt found at LAX only larger. Maybe that's what they'll find at Fort Irwin.
There are probably pockets of military left though. Possibly along with some scientists or doctors who have knowledge about what caused the outbreak.