Hi adz,
If you get a new turbo timer then it will come with the fitting instructions that will def have the correct ignition wiring details so that it can by-pass the imobiliser until it has shut down which will trigger your imobiliser to kick in. As for locking your doors, that will not be an issue either as the fob will lock it as soon as you get out of the car and press the button mate. The car will lock and the engine will stay running until the timer has timed down.
Let me know how you get on buddy.
El