This was discussed in the 4e augmentation books.... and basically the end is: "the tech level isn't there".
No pilot program is "good enough" to take over the 3000+ automonic responses the body generates every minute....
THIS is why cloning is a dead end in SR (used only for organ harvesting).... And as a certain individual has dumped BILLIONS into cloning in the hopes of becoming "not paste in a jar" and has failed... well its not looking good for you either.
Basically the lore and rules say "No" to your idea... but on an even sicker note:
There was/is a vile rigger out there that has a fetish of taking perfectly normal people, kidnapping them, using tech to over-ride their motor control and mental facilities, and then uses them to commit crimes ranging from robberies to murder....
But using clones for the same idea? Nope.... by SR science, they wouldn't survive long enough for the implantation of ware - even IF the ware could do what you are hoping it could (which, by lore it can not)
What you have forgotten is that in SR, there are two sides: the Tech and the Holistic (represented by Essence).
Clones do not have an Essence rating. Which means in SR terms, they are non-functioning "meat". As soon as they come out of statis, they die. They can not accept implants and survive because "their" essence is already 0 and the implant would push them into the negatives.... and thus die.
In SR, Essence is the measure of life and how well the very 'soul' clings to said life.... Clones were never born, they were artifically grown, usually at an accelerated rate, and thus don't really have that magical/mythical 'soul' - the very spark of life - to start with...
And THIS is why cloning in SR is seen as a dead end. While technologically the clone is a perfect copy of the original, they still fail to be viable outside of the Vat they are grown in, and all atempts to keep them viable have failed.... So the only thing they are good for us limb/organ/tissue replacement - as they are a perfect genetic match for the original. Or have been genetically modified to be a 'universal' genetic match (type O donor).
(Essence is also why the infected can't get by on 'bagged' blood or 'canned' meat. They need the Essence of their meal along with the meat/blood.)
And yet you can play an Escaped Clone who is augmented to the nines and back... or one who is awakened. 
So obviously they DO have an Essence Score. Otherwise both options would be totally impossible. 
trying to find where it says you can play as an escaped clone... been through 8 books with no luck. Could you point me to the book and page please?
I remember something to that effect, but can't remember exactly where.....
And to go back to Clones:
here is the most current write up on the matter from Chromed Flesh:
Chromed flesh page 98 - 9 (cut and pasted together)
....Nicknamed “wimps,” they have undeveloped
brains but fully developed forms, allowing you
to simply take what parts you need and leave the rest
either for later use or for eventual recycling.....
....They’re non-entities, despite the urban
legends that you hear, and no, no one can “upload their
brain” into one to gain effective immortality. You’ve
been watching too many sims.....
....Switching gears a bit, there’ve been several attempts to
rig up “wimp drones” using modified versions of biorigging
gear. You’d figure if you can rig a cat and you can
rig a roach, you could rig a wimp, but no, same problem.
The neuro-net just flat-out isn’t developed enough to take
for a ride. You get rumors that Saeder-Krupp or Proteus
has the tech (it’s always the Germans for some reason),
but no one’s ever been able to find proof—and believe
me, we’ve been hunting.....
....
Note that unlike in 4e, they never give you the stats for a Wimp/clone in 5e. For all intents and purposes, they are non playable. Nor in all my searching is there an option to be a "clone" in 5e....
