I know I'm making another suggestion rather soon. I tend to get hit with ideas in rapid succession.
Out of the graphs you can bring up in game, the two I find most useful are the avg. mutations graph and the populations graph (the avg. dna length fascinates me, but having too many graphs covers up the sim and annoys me). I think there are possibilities for new graphs that could be useful. I've thought of one so far.
Strains Graph
When a bot mutates, it becomes another strain within the bot species. A graph that shows how many strains of each species are in the simulation could be useful to show areas of transition. When the number of stains remained above 1 for a relatively long amount of time, it would probably be because the mutations that created the new strains did not cause a major advantage or disadvantage for it. however if the strains dropped back down rather quickly, it would probably because the new strain either won out or died out. You would be able to tell which by seeing if the avg. mutations graph went up or down. If up, then the new strain won out. If down, then the old one won.
This could be useful for more accurately tracing what exactly evolution is doing, and I don't think it would be to difficult to add in.