Whether the Caltrain schedule matches the highway 17 bus's schedule is not solely the fault of Caltrain -- it's either a 2 way street, or else they're both neglecting it, unless you have proof otherwise.

I have ridden MTA (NYC) and BART when they have stopped the trains in unpredictable locations for various reasons. For short stoppages, they don't say anything, but for stoppages more than 30 secs, they typically say something.