"It was made in the image of the most notorious terrorist of our time - any suspicious activity is grounds for questioning.  Resisting arrest - and a chance to justify itself - is grounds for what comes next."

Err oh yeah...... errr........The man who located and inspired Neo, the chosen instrument of the oracle, the man whose actions provided machines and mankind it's only Peace for hundreds of years, a peace the Machines failed to recognise as a way to break a redundant and aimless dead loop, the same Machines who actually worked against that peace from moment one via the covert sponsorship of the Cypherites and who later arbitrarily decided to end said peace in favour of the much better alternative of making no progress on any issue whatsoever, the same machines whose only known response to dealing with abberations they can't comprehend is extermination, those machines that hunt down and kill their own kind whenever they wander outside their strictly defined parameters....oh yeah that notorious terrorist......can't figure out why this sim wouldn't just surrender himself for questioning.......

No good deed goes unpunished eh?

Of course maybe even the actions of Morpheus were just a reaction to the suggestion he had been a machine stooge all along. A Sim dropping code bombs might even develop a conscience.

Still lets us all applaud that invincible policy that exterminates anything that is not understood or anything that can be percieved as being different or its summary "all evolution is evil"......history has so assuredly convinced us of the wisdom in that regard. 

It had a chance to make itself understood - it was wanted for questioning, not termination.  Rather than explain itself, it chose to flee - it has something to hide.

So... the Morpheus Simulcra sort of can't survive out of the Matrix, can he? Why would he want to harm the System? Or is there something else going on, Pace?

If Morpheus could, he would give his life to destroy the Matrix to get Neo's remains.

I'm just saying, that's all.