If the whole team stays despite losing by a decent amount(which is rare), I will stay in the match. But if 2 or more people on my team leave I will too. There is literally no reason to stay at that point. I get that this is supposed to be like a more "hardcore" version of the Crucible, but this seems like an obvious flaw that should have been accounted for. Leave the masses to their own devices and they do stupid stuff like this. Maybe getting 5 rep for wearing the shader and 5 for wearing the emblem even though you lost. Just..... something....
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If your team losses you get an iron medallion. You can have up to five iron medallions on one character. The next game you win, the game automatically redeems the medallions for (if you've don't the NF) 44 reputation each. For the win you get 55 (with NF) so leaving actually costs you more reputation than if you had stayed and lost. Also losing after you have 5 medallions will wind up costing you rep because you can't have more than 5 of them at one time.