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Each government true own history but, they not part the same universe since way travel does seem different. 

I came up with a few reason First they cheap you can get 200 B1 Battle droid for single "Droidekas. No information I am aware of that suggestion how much commando battle droids  cost to expensive to massive produce which number go by this questionable. This combine good battle field tactics send wave of B1 Battle droid charge keep enemy business while the Droidekas and commando battle droids do the rest work make some sense.  Means more expansive once able to do job more effective and get into fire range and possible survival battle.  Weakness this argument first case you on defense simple put the Commando battle driods and the Droidekas are better options when this kind mess. Other weakness is that how badly does Confederacy independent system also afford fight war were Republic force out number 5 to one rather then 1,000 to one.  Second they jack of all trades this seem good argument first start realize it weakness yes smaller Confederacy warships B1 Battle driod make the entire warship some ways dispensable. On other hand warship like  Subjugator-class heavy cruiser you kind do want specialist R2 units better repairs and the commando battle droids.  Commando battle driod could do little more work but, also to do ship security and man gunning station. For that matter  Malevolence's never been destroy first place if R2 used for repairs and Commando battle droids be used both for some task on the ship and security.   Of course also be fewer battle droids per a clone if this done. How much so is questionable you talk 5% or so fleet real give this kind upgrade. 

Real answer is of course the Darth Sidious  when Separations battle droids out number old Republic clone army out number thousand to one,. Now is question how many people will volunteer to high costly mission. Even at least some people just giving roft over their heads and food and pay was enough the type job average stormtroop doing would be less riskly taking inside working real warships. Wish had Republic offer them same chance we get hear one person say though.  Even likely many people lost homes and if army gave chance pay check would taking this do go fact if we talk about Warships they are less risky fair then fighting on planet surface. Now part answer might been simple local militias  both side nearly bankrupt by the war.  Yes Separates out number Republic thousand to one , but we no idea how much local militias involved get see then some what in Clones wars.  Value having volunteers aid in war might real worth while. This does not go how dangers something local militias doing keep world free.  This might explain the Jedi most cases since pound for pound Jedi using force combine with Clone soldiers force fear.  Few weakness to so call argument 1.  numbers do matter mortars and so forth jobs high risk area and Volunteer and they do need special training. For that matter battle for Kashyyyk will train mortar teams cause more damage to attack battle droids aid in fight all together. Even middle range machine guns need some training even Star War fans like claim otherwise. Even real answer is Darth Sidious like argue that local militias up task go in between two areas.    

It just a theory but look these people basic throw dying people into subspace area think bring about more advance afterlife.  Alien in Star Trek voyager Coda try get convice Caption Jameway that she died and go into his matrix basic in theory if creation religion almost perfect way get what he was after.