I believe 11 was held at Chico (just after they called in departing), 14 was held at Emeryville, 6 was held in the yard in Oakland, and 5 had slight delays as the tracks were just opening up as they came into the area.
As far as I have heard, the passengers were allowed to go out into town (per say) during their extended stay.
Given the delay in Emeryville (held there just under 12 hours I believe) they probably could have had a mini-lunch trip to San Francisco! (I doubt they did but it was a nice thought!)
As for the San Joaquins I believe trains 712 and 713 were cancelled. Capitol Corridor trains 720, 723, 724, 727, 728, 733, and 734 were also cancelled. Capitol Corridor did contact local transit agencies for mutual aid. I am not sure how much was provided, however transit agencies usually, at a minimum, accept tickets on parallel bus and BART service when there are service issues if additional equipment isn't available for a bus bridge.
On the Capitol Corridor, the LSA passes out $3 Café Car vouchers from a booklet for Service Recovery on occasion. I received one last week when my train was delayed an hour due a fire in Dixon adjacent to the tracks. These are Capitol Corridor specific vouchers. It is a nice little gesture as they don't have formal meal service or extra rations to give away per say.