Just delete the new runes and also leave the old ones out. Because then I THINK champions will be truly more balanced. Runes are just making certain champs problematic because you can add strenghts and camouflage weaknesses, but that's what a champion should be all about. Runes are just making the game almost impossible to balance. Buffing a champ also means passively buffing the runes for that champ and then all other champs' strengths and weakness will be shifted so hard. The runes just make it more unbalanced.
This is just my opinion about the situation, I'd like to see a week where there will be no runes, no old masteries, nothing... just the champions themselves and the players' skill and that's it!