A few things that make up for it

In the interests of fairness, I should probably state my reasons for persisting with public transport as my main method of transport to and from work (and other locations, but not as regularly).

1. It's cheap. Certainly a hell of a lot cheaper than paying for parking any place closer to my work than my house. And a cool arrangement for paying off an annual pass that's a perk of my job, it's an even bigger bargain.
2. It's far less stressful than driving into the CBD in peak hour.
3. It's a bit of brainless me-time in the morning and evening. Kind of a buffer between work and home.
4. It's an opportunity to read for an hour or so every week day.
5. It's an opportunity to listen to music for an hour or so every week day.
6. It's good for the environment. Less use of renewable resources.
7. I put hardly any kilometres on my car. I can go longer between services, and I only put fuel in about once a month (sometimes even less)
8. Far lower risk of accidents. Admittedly, the one's that do happen are pretty nasty, but they're pretty unlikely events.
9. You can't get arrested for talking on your mobile phone whilst travelling on a train. Hmm...maybe that belongs in the other list....
10. It's more sheltered than walking, especially in inclement weather.
11. If you happen to go out for after-work drinks, you don't have to worry about whether you're alright to drive or if you should leave your car and have to pick it up somehow the following day.
12. Thomas the Tank Engine is a train and he's pretty cool.

OK, I may have been pushing it on that last one, but I realised I had nearly as many good things as bad, so I thought there would be a nice symmetry if I came up with one more...