I find that POD is great for documentation for users. That is for documenting interfaces to class/instance methods, basic usage, etc. It lends itself to sitting just outside a sub{} block, at the beginning and at the end of a piece of code.
But for good comments of the # variety, I really like Steve McConnell's suggestions in "Code Complete". Instead of writing code first you write pseudocode first-- discrete, plain English descriptions of what is to happen in this piece of code, indenting to show sub-blocks and such. Then you prepend # to each line (actually I'd just start with them there). Then you insert actual code in between those comments-- having already "rehearsed" the procedure mentally, writing the code is halfway automatic. Then if you have anything in your code that really isn't readable (but mostly it is because you use sensible variable names, keep your statements simple, etc etc, right?) you make a quick note what that does. Ditto if anything your code in has side-effects that may not be visible just reading that bit of the code. Of course, this sort of precommenting with pseudocode takes some discipline, but I find when I use this technique my code is a lot better.
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