While it’s not directly related to JOGL I’ve seen a fair amount of interest in the topic here and I thought I’d share anyways. Apparently in one of the more recent drivers they have released NPOT support has finally been fully implemented, though there is still some weirdness to it. If you have the wrap modes set to clamp it ignores your filter mode and provides hardware accelerated nearest filtering, if you change to a different wrap mode it appears to obey all the settings nicely but it falls back to an emulation mode of some sort.
Oh and this is for the R300 class chips, I haven’t tested any of this on the R420, R520, or R600 series chips