I generally prefer to write about problems in the context of possible solutions to them. On cars vs. trains, again generally, the intro of my latest diary Innovation and modal shift in Baden-Württenberg gives an implicit answer :-)

Crowded conditions during rush hour

As bad as that can be, the alternative may be crowded conditions on the road (a traffic jam including crappy old cars with smelly exhaust and other drivers in road rage).

close contact with other smelly, ugly, and noisy human beings.

Not limited to trains, this has been the subject of two diaries focused in inconvenient aspects of using pulic transport: The Buses of London or Why I'd Rather Walk

Lond

Lack of control of schedule

From experience I this is an issue if that schedule is infrequent or not well-adjusted with connected services. Like what I was faced with when travelling in Western France. My lesson from this is that generally, frequent services are desirable even if they mean shorter and thus less weight-efficient vehicles.

the concert that's a km off your optimal trolley line

Is this more about schedule or coverage ("line availability")? I face this kind of problem when I want to go to relatively nearby places which I can only reach via Budapest, due to a lack of proper orbital connections. This can only be addressed by network expansion (or close coordination with other modes of transport that can provide extra connections).

Pricing variability.

You must think of something specific; what? I'm familiar with three kinds of price variability in public transport: (1) general fare changes (almost always relatively minor increases at about annual frequency), (2) fare system changes (like the introduction of some zone ticketing or variability according to demand peaks) and (3) changes in fare reduction schemes (elimination in times of austerity and introduction in good times). For road traffic, these are paralleled by (1) (more volatile) fuel price changes, (2) the introduction of and changes in road toll, congestion charge and parking charge systems, (3) changes in fuel and car tax policies. All in all, I don't see how pricing variability in public transport is worse than for road transport, hence my curiosity regarding what you were thinking of.

_{*Lunatic*, n.
One whose delusions are out of fashion.}