There'll definitely be more skimming than we would ideally like, but I think that given how little attention Scorpion received in MK9, his development will get much higher priority this time around. Something like what [MENTION=6443]Ermac210[/MENTION] suggested seems likely.
Wall of speculation INC:
1. We can basically rule out Kenshi's chapter coming after Johnny Cage's, because NRS logic dictates that Kenshi and Scorpion must fight for Scorpion to redeem himself, and Johnny Cage already beat Scorpion up. It's not at all like NRS to repeat enemies that quickly.
2. Does Kenshi even get a chapter at all? Weeks ago, I speculated that Kenshi would get the first chapter in the game, based on his involvement with SF and his future history with Scorpion, but now that we know he doesn't get the first or second, I have to wonder if he gets one at all. Let's say there are 12 like in Injustice, I think Johnny Cage, Raiden, Scorpion, Sub-Zero, Kotal Kahn, Cassie, Takeda, Jacqui, Kung Jin, Erron Black, and Kano are all more likely than Kenshi to receive one. That brings us to 11 right there. MK9 and Injustice had a repeat chapter, so let's say Kotal Kahn gets two. That's 12 chapters. Done and done.
3. Scorpion having at least one chapter is guaranteed, and he would make a great transitional character to help NRS travel through time. We've already been introduced to him in chapter 1, then imagine he gets chapter 2: he can still fight Kenshi (and someone else) during the NRW, then at the 15 year mark we can see him spar with Takeda, and then in the present he can fight Raiden after Raiden comes to recruit Takeda for a mission with the Special Forces.
Food for thought, I guess.