From what I've seen/read about Runewars, the hero game and the army game happen on the board at the same time but they don't really interact with each other much. It sounds to me like you are playing two seperate games simulataneously.
I really like Runebound and the setting. I also enjoy other conqueor the world type games, but I'm on the fence about buying this game because of the strange sounding double game happening.
In the opinion of players who have played the game, does the system mesh together well or is it a gimmick?