How do "commuting" pilots ever get to work using this system? Sounds like they run a high risk of not making it to their base on time (or at all).
What does the airline do in situations like that?
Most employees don't. Pilots and FA's are the ones who mostly commute and they have the benefit of having dedicated jumpseats that they can occupy. Pilots have the best deal as they can jumpseat off line, meaning most any airline. Even FedEx and UPS have jumpseats available, however they are seldom used as you then have to fly on their schedule...ie, middle of the night. (However I hear FedEx has an awesome crewroom in Memphis for you to wait while they do the sort)
Anyway, having jumpseats available that regular non-revs and buddy passes aren't eligible for is what makes commuting possible. With that said, those jumpseat tend to fill up anyway with pilots and some guys get huffy about it. Seniority gets checked and so forth. Point is you can easily miss your ride and have to go find another. Commuting basically sux. But then, living in domicile can blow too so it's sort of a personal thing.
Funny jumpseat story. Read if you like:
I had left the airline and started to work for a fractional. This was back when 91K was pretty new. I was standing in uniform at the gate with a company paid ticket waiting for them to board. A few United pilots were milling around the CSR desk and I could see they were deciding who was going to get to go as it was a full flight.
After some time a grey haired United Captain comes over and tells me it doesn't look good for me. There's only two jumpseats and he and the other guy are going to take them. They're just waiting to see if their third guy is going to get on.
I thought I'd have a little fun so I just said, 'it's okay, it is what it is' and left it at that.
When boarding started they called my zone and I grabbed my stuff. My new friend was not happy and ran up barking at the CSR about how there was a line and I was OFF LINE! Why am I boarding???
She just looked at him and said, 'Captain, because he has a ticket.'
I smiled and went on my way. One of the few perks of flying fractional I guess.