I think it's a shame that the prevailing message I'm seeing from people is "don't use Kickstarter," and not "this is a cautionary tale to plan ahead and get your business end together before you even start." I don't think it's fair to say that this poisons the well for VNs on Kickstarter. I come from an indie comics background rather than an indie games background, and I've seen this story play out time and time again with book projects. Despite that, comics are still large enough on KS to be their own category.
Indie creators, regardless of background, can get easily overwhelmed when an influx of unexpected money comes in, and it sounds like that's what happened here. Rather than shy away from crowdfunding as a whole, it's best to make sure your plan is as iron-clad as you can possibly make it before you even start the project, and then make contingency plans for your contingency plans.
Something I haven't seen mentioned here that's fairly common in comics kickstarters are fulfillment services. There are people like
Breadpig and
Backerkit, or
this cool sounding software that will help manage the post-crowdfunding phases, but it all comes down to having a plan in the first place. It sounds like Dischan wouldn't have been prepared to even reach the stages for this, but it is possible that combining a fulfillment service with a good accountant could have saved them.
It's a shame when an idea ends up choking on red tape, but I don't think that means that the platform itself isn't viable.