When the consoles transmit, they act no differently than they would on a "4 wire" system. The subscribers are transmitting on the repeater input and are rebroadcast over the output, whereas the consoles are keying up the repeaters directly on the output, so that audio preempts anything coming in through the input. Really no different from a conventional repeater, but with the extra logic that trunking provides.
The transmitting FDMA subscriber would not hear the console, because as
@mmckenna points out, it's still actively transmitting. TDMA subscribers, on the other hand, will hear the console because they are capable of receiving while in transmit mode. The transmitter is pulsing on/off every 50ms, and monitoring the other slot of the traffic channel while doing so. That is why TDMA can provide enhanced features such as emergency preemption and in this case, the ability for the consoles to get a transmission through to a transmitting subscriber. No, they don't actually simultaneously transmit and receive, but 50ms cycling is damned close to it.
Yes, a time-out timer is a must, and the
End Tx on Voice Absence feature of the APX series provides even more protection, as the radio will stop transmitting if the vocoder doesn't detect human voice within X amount of seconds of keying up (default is 5 seconds).