1-Self Destruction: Dr.Matt, i know you have rejected the self destruction system
BUT, lets make a simulation
Someone Enters your TARDIS and steal it
you can use sonic screwdriver do destroy, cause there is not another way to kick that person of your TARDIS, and if the TARDIS reject your commands or for a last option, the player should destroy it, an alive TARDIS is more deadly than a dead TARDIS (i am the proof, dont ask why :v )
2- TARDIS Emergency System
If Damaged,Stolen, etc. the TARDIS can activate by itself a Emergency System, (the same with sonic screwdriver) it will automatically lock it and turn off, rejecting any pressed button on the interior, the emergency system can be only deactivated with the Sonic Screwdriver
3- TARDIS Conscience
If there is any trouble happening (like NPC Wars or materialize during a War) the TARDIS can reject doctor's (player) command (can be disabled in menu)
4- TARDIS Safe-Materializing
Simulation: there is a war happening on the map, what should TARDIS do?
Materialize in a safe place, maybe 300 Meters (minimal distance) away from the war
this would be very useful, my TARDIS got destroyed 4 times by a nuke, HADS saved me, this nuke was used in a war and my TARDIS was on the nuke range, i was the only in the server who can revive a TARDIS if is destroyed by nukes, hide,locked,bugged,stucked etc.
5- New object: HANDS
what should it do? open the TARDIS door, allowing the player to observe the world or destroy some things (see 6º sugestion)
6- TARDIS Heart, rose looked on the TARDIS heart and have turned itself in the "bad wolf" you can allow doctors to do this, it will be interesting.

Sorry for my very bad englishm if you cant understand any Sugestion message me and i'll send the text again.