@Umbral Reaver--Regarding customization in the app: this is a question we are constantly evaluating among the team--it is a critical one as you rightly point out. Our current thinking is that we will allow all numerical data to be edited. So, for example, on the digital character sheet, if you want to change your HP to something outside the bounds of the rules, you could do so and a pop-up would warn you it was outside the programmed rule set (which you could, of course, then ignore). Then, we want to add in a series of editors that would allow you to create custom classes, feats, etc. Our hope is that those two approaches will cover many of the customization issues.
The above will not, however, allow you to change the fundamental mechanics of a rule set (i.e. I have decided to add 'edges' from Savage Worlds instead of feats into my 3.5e campaign). Testing will tell us how well our approach is working and what, if any, adjustments need to be made.
And please don't take offense, but I hope your crystal ball is more cloudy than clear :-).