try saving them as flac then converting them back with frontend...just an idea. ive never had that problem, but i have had problems before i knew about the ability to save directly to flac where frontend didnt recognize the CDWave tracked waves. something to do with thier file nameing i believe.
on a side note related to this topic. i know CDWave tracks on sector bounds for 16/44.1 wavs, but if you track a 24-bit, save the cue sheet and then load it to track the 16/44.1 wav, will that also align on sector boundaries? i always track the 16's first and then use that que to cut the 24s but wondering if i could go the otherway as well.