So, my observations. All settings as in your dialogs, except specified explicitly:
1) Original signal mixed heavily over 0dB
1.a) "Export audio" dialog "Bit depth" 24 : FLAC has not digitally clipped the signal (also over 0db), heavy digital "bugs" in the waveform, of 2(!) types:
I) one is already mentioned big +-
II) DC shift of sample groups (like to +6dB, so completely out of +-0 region).
1.b) "Export audio" dialog "Bit depth" 16 : FLAC IS digitally clipped (no signals over 0db), but no bugs in the waveform
2) Original signal mixed in general under 0db, but one time it is over 0 db : the same is 1.a, so the waveform is buggy
3) Original signal mixed strict under 0db, no problems.
Note: when analyzing previously posted screenshots or reproduce that in Sonar, keep in mind that Sonar is drawing strain line on the border of visible area (f.e. 0db). Zoom our dB scale to check that the signal is really clipped there or in fact cross the border.
My conclusion: with 16bit setting, exported material is digitally clipped at 0db. With 24bit setting the signal is somewhere (Sonar, libsnd, flac?) normalized to allow saving over 0db and something in this procedure is buggy (the signal is destroyed not only on limit).
For the "usefulness" discussion: since in 24bit mode the signal is not clipped but scaled, even when the bug is found and fixes there will be no sense to use that approach. I mean the effect is the same as just lowering master output volume and than write in the file header "maximum level is thought to be +5dB instead of 0".