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The factory security system cannot cause symptoms such as you describe; it cannot shut the engine off once it has started, and will not disable your shift interlock as it has no control over teh interlock.
The symptoms you are describing are all consistent with low battery voltage; it sounds as if your charging system may be malfunctioning. I would suggest having the battery tested for state of c harge, installing a replacement fully charged battery, or trying to see if the vehicle will start with jumpre cables.
How are you making out? Did you get your truck started?