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Does it really matter? In most cases, shouldn't software just be compiled with all the features it was designed to have? In those cases that it really absolutely doesn't, you can always rebuild from the source RPM, which is far more configurable than silly USE flags anyways.
And why would you ever build software WITHOUT support for something unless there's a security risk, or you only have 20 MB of disk space?
First of all, what's the point in having ALL possible features compiled-in when you know you will never ever have any use for those features? It'll just waste memory when running that app in question! And no, SRPM is not "far more configurable" and it's a lot bigger hassle than just doing emerge.
As for the question why would I want to build something without the support for everything possible...well, as I already stated I just won't have use for everything possible! And I also noted that it'll just waste memory for nothing..
Besides, when compiling from the source you can also INCLUDE features which are not enabled in your precious binary distros..One such feature could be support for proprietary file formats which you won't get in your distro unless you find a repository with such and know how to add them to your package manager..
There are so many people in the Gentoo community who seem to have these insane obsessions, like only using GTK+ programs because the 10 MB of Qt libraries is too much, or using ancient underpowered Window managers and text-mode only programs because they can't stand having more than 5% of their 4 gigs of RAM filled. I think some of those people need to go into therapy.
Ever heard that people might have differing tastes for things...? I know it might sound just amazing and unimaginable but it does happen :O I use GNOME myself but I don't use any Qt apps and as such have also removed support for Qt from everything on my installation. Why? It's not about disk space..It's just that GTK+ and Qt just doesn't mix and match nicely together. Qt apps feel really out-of-place on a GNOME desktop and I hate such. (And no, I don't have 4 gigs of RAM on any of my machines. Actually, I don't have even 1 gig..)