A couple applications to look at:
1) note, it's command-line, but it doesn't create a window.  Written in perl, and allows a couple different storage options.
2) gdesklets This includes a bunch of little desktop items, including StickyNotes, which is pretty close to what you're talking about.
3) Rhinote, another notepad app, supposed to be a bit simpler/smaller than Tomboy.

If you like Tomboy, but don't like that it's built on Mono, you should look at GNotes, which is a straight port of Tomboy to C++.


Josef Lowder wrote:
> Is there a digital sticky notes utility for Linux?
> 
> Ideally, it should allow quickly typing a short note on the command
> line to be displayed as a *very small* note (about 2" wide by 1" tall)
> in a pre-defined spot on one of the multiple desktop/workspaces ...
> with no title, no menu, no icons, no border, and no other clutter?
> Clicking on it should allow either adding lines or deleting it, and it
> would remain always on top on the designated desktop/workspaces
> regardless of what other apps or windows were open.
> 
> I currently use a "todo" text file and kwrite for this, but it of
> course has a border, title bar, and bulky menu that cannot be
> eliminated, and it cannot be reduced as small as I would like it to
> be.
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