Get the Imperial Assault Campaign module for Vassal from http://www.vassalengine.org/wiki/Module:Star_Wars:_Imperial_Assault
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A hero with a second activation token (whether 3 heroes or 2 heroes) cannot take his second activation before every other hero has taken their first activation.
A hero with a second activation token still doesn't need to activate first. There is still a lot of freedom.
The hero with the second activation can still activate 3rd and 4th in a 3-hero game.
And you don't need to rotate the activation token between all heroes, it can go between two of them as need arise, as long as it moves during each end of round step.
RRG, Activation wrote:
-- If a hero has two activation tokens, he cannot resolve his second activation until after each hero has resolved its first activation.