Well, I noticed something strange today. I had installed a few new argonian textures today so I went in game to see them. The males were just fine, but the female texture were bad. Thinking that the new textures were the cause, I uninstalled them and still, the argonian female was bad. So I uninstalled anything that might touch argonians, yet still bad. So finally I removed TGND and lo and behold the argonian female was fixed. All I have installed is FCOM plus Robert Males TGND and a few face mods and argonian texture mods. So I am without doubt that TGND is the culprit. Has anyone else had this problem?
http://i391.photobucket.com/albums/oo351/Spiffyman777/badargonian.jpg(female argonian in underwear)
Clothed or underwear both have the bad body textures.

Does manually replacing the female textures in your data folder not fix it?

Nope, heres a screen I took for Emmas customised Vilja, as Argonian, using HGEC textures prior to this screenshot, but then I also tried Foxs Female Argonian textures and TGND meshes ..

http://www.tesnexus.com/downloads/images/28977-1-1279219873.jpg - Wearing HGEC Mythris Armour.

Well, I just installed a another texture pack by amnes (removed the male textures, so it only affected female argonians) and everything worked fine. I would prefer the other textures, but at least this works. I also just unarchived the TGND files and there were any textures for argonians. So I guess the problem was that the TGND didn't like the vanilla textures for argonians?

Any textures you use for females, as per Luchaires instructions for TGND, have to be Exnem/HGEC based. So F-Inev, Ozmos, HGEC, EVE, Exnems and any beast race textures also compatible with Exnem/HGEC all work.

I have F-Inev installed, but I still had the textures like above. It was only until I tried amnes' textures that it worked. Maybe my F-Inev archive was corrupt?

Have you tried actually opening up the archive and looking at the textures? That would be a quick way to find out.

Correct me if I'm wong but F-In Ev doesn't contain any argonian textures. Since TGND doesn't include any body textures, if you installed only F-In Ev, argonians would still use vanilla body textures. Needless to say they don't fit TGND. Look at TGND's optional files for the default EC argonian texture.

Mystery solved. The F-Inev archive doesn't have argonian or khajiit textures. That explains why that argonian texture mod worked then, since it actually gave the textures that were missing....
Thanks Nephenee and WyndChyme!