As shown in this screenshot, when looking at plots with multiple traces and multiple runs, the auto-selected colours overlap leading to confusion. While this is always an issue in plotting tools, I'd expect to be able to have more than 6 lines on a graph before I start seeing duplicate colours. Especially as the overlap is offset so that the duplicate colours are not the same variable across runs.
I would expect that if there are sufficient colours available, each run should have distinct traces with no overlap. I can get such a plot by manually tweaking the "run colour"
If there are sufficient traces or runs such that a set of traces for a given run can not have unique colours, then I think it would be least confusing to reset and ensure that the new run has the same colour for each trace. I demonstrate that in this artificial example:
