1) I suppose you mean the program 3dZeropad.
2) It is hard to say without having such a file here. You can try to e-mail such a file to me, and I'll have someone look at it. Not too much data at once, though, please! A single file should be enough to start.
3) You need Rick Reynolds to answer this one.
4) 3dDeconvolve and waver combined.