I stated this in another post, but this one is much more well thought out. First and foremost, I think Bungie will bring back the Materials for Marks, but it will be tweaked, hopefully better (50 materials for 10 marks, or some such).
As an alternative, that I think many would prefer, I have this suggestion. Faction Marks. Earned whenever marks would normally be earned but specific to the Faction for which your class Item is set to. Dead Orbit marks, Monarchy marks, etc. This way, people could build their wallets doing exactly what they wanted to. There would still need to be some kind of cap, however, as this keeps the "balance" that Bungie wants. If you earn your Faction marks from Vanguard strikes, those marks would still count against your Vanguard cap. Same goes for Crucible. The only upside to this method, you could earn your entire 200 mark cap for a faction by playing in both styles. Perhaps this is too OP, but I think its much better alternative to no alternative.