The easiest way to do it would be:
1. Select the cloner and then create a random effector (it’s automatically applied to the cloner);
2. In the effector’s parameters tab, select color mode>on, and check the “use alpha/strength” box;
3. Create a new material and place the mograph>multi-shader in the color channel;
4. In the multishader properties, click the arrow to the right of Shader 1 and select the standard color shader from the menu;
5. Set the color you want in the color shader properties;
6. Repeat for Shader 2;
7. Drop the material on your cloner. Use the interactive render region to preview the effect (it won’t display properly in OGL);
8. Go to the random effector>effector tab and click through the seeds until you get a distribution you like.