Which Touch is it? If it is one of the original Touch's, then it is uses IR touch. And I think the Touch 2.0 is as well. Clean under the edges of the bezel. Any muck caught under the bezel can block the IR beams and cause weird touch problems. This was a big problem for the original Touch.
I don't know about the performance. I have never noticed any real performance issues with kepubs except when opening very large books. But, I don't read manga and I do not know how these are constructed. It could be a resolution issue. All versions of the Touch have a 600x800 screen. The images will need to be downscaled to that for display. If the book has multiple images in a single internal, that could cause problems as all would be rendered in one pass.
And for the record, for your device you have, "None. (who cares)". We do. It helps us to answer questions when it appears to be a device specific problem.
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