OK... just downloaded from the link again to update it (though it's still reading v 1.0 is that right?).
I don't quite get the relationship between the IP window I raise the skill in and the skill display.
Level 200 Nanomage MP seems to give some odd ability values. For Intelligence for example in the IP field I can raise it to 497 (which is clearly wrong) but it displays as 503 in the Grey box - which is closer but still wrong. Correct value should be 512.
Same goes for all of the abilities to greater or lesser extents.
It looks like you've added the begin values to the grey display box - but are allowing the player to raise the skill to number of points invested rather than inputting the level of skill desired. This will make it hard for people to duplicate their setups. The changeable fields should display what you'd see in game. So when I look at my unbuffed Stamina in game, I should raise the value in the field to the same value.
Mat Met for the level 200 MP with maxed abilities should max at 727 - but yours gives 725 which may be due to the incorrect abilities given the variance.
The addition of item and buff values is excellent by the way.
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