I can't dispute your logic - they both give the same magnification of image and yet one has more pixels so you'd think the 350D has a smaller pixel size. Would be worth checking though. And I wonder if advances in the CCD counter that pixel size increase with respect to sensitivity. I'd see if I could find their QE if I were you.
I've some some experience using a 300D and I have a 350D. I've found quite a difference between those two in processing speed, the 350D is much faster from what I have seen. I'd expect the 400D is the same as the 350D in that respect as they both use DiG!C II, as compared to the 300D which has v1.
Personally if I were in the situation I'd probably upgrade from a 300D to 400D but not 350D to 400D.
My 2c worth.
Roger.
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