I say that at the beginning of the stroy where the republic is strong doesn't go with what is said in TSL. DUring the game Goto said that if Malacor V was to be destroyed then the Republic will fall in a matter of months.
"Do what must be done, do not hasitate, show no mercy!" ~ Darth Sidious
"Peace is a lie, there is only passion.
Through passion I gain strength.
Through strength I gain power.
Through power I gain victory.
Through victory, my chains are broken.
The Force shall free me." ~ Sith Code