Disclaimer: My intention is to be helpful by sharing a few opinions and a bit of knowledge, not provoke personal(ity) confrontations over disagreements anyone might have.

Re: Okay, so maybe you like your .DS_Store files.

It's not a matter of "liking" them or not, just that some people will probably appreciate being aware of their purposes before deleting them.

In general developers aren't responsible for user education, though I always appreciate when they're concerned enough to provide minimal usage caveats with "system behavior enhancing" software. It contributes to making a positive first impression and is something I look for when evaluating, choosing, and recommending products and developers.

Re: My machine is running as a server mostly.

Maybe you already know about this:

Mac OS X 10.4: How to prevent .DS_Store file creation over network connections

Not a complete solution though sometimes it has value.

Re: you can always edit the "RemoveDS_Store" Unix executable in /usr/bin

/usr/bin is typically considered off-limits for third party software installation on OS X.