Some tools to solve LF2 related problems

[A-Man]

Whenever you get an "index out of bounds error", then it should always be a problem with your "w: h: col: row:" line of that grid it stopped at. You really should work these out. I tried fixing your ichigo files and all the grids with row: x col: y are reversed. Then there was this "ichigo_3.bmp" grid. It has got an "h: 85" and an "col: 6" which would usually sum to (including the green lines) (85+1)*6= 516 pixel width. The grid itself has got a 512 pixel width only 0_o.
And with all seriousness, these grids you wanted to clip are not really bad at all, and clipping such ones won't make much difference. Try running the clipper on these grids where you can see the square the sprite is put in much larger than the sprite itself - a waste.

And something that might help: when you sometimes think a character is having only one grid (out of many others) that needs clipping, you don't really have to include all the grids in the process. Just remove the ones you don't need out of the "input" folder. Yes, it won't throw an error, but just clip and do the ones it finds.

~And fixed that annoying run-time error. Will upload the fixed version soon.

Edit: Uploaded the fix http://www.mediafire.com/?h55owiw8t7km3p9 . Updated the link in the first post.