You can already buy energy to progress the story, for kobans. So you're saying "take a thing that can make revenue for the developers and make it free instead". Personally, I think the reason they force story progression to be so slow is to stop everyone from just charging through and piling up at the end, waiting for new chapters to be released, then getting bored and not coming back. This way, they hold you in the game coming back to click along a couple of times a day, while the devs work on a real combat system or whatever they're doing.

Everyone agrees the game is unbalanced in a lot of ways, but removing a revenue stream and removing a source of player "stickiness" isn't going to help.