All apk files need to be copied to /system/app folder(though some might work with regular install) except framework-res.apk and twframework-res.apk those go in /system/framework folder .
To change android theme just flash this http://www.megaupload.com/?d=PBSOXDEL in clockwork.
There is 28 themed apps and live wallpapers in this bundle.
If ya like these i can post a fully themed kanged froyo rom.
Themed Apps Bundle Link: http://www.megaupload.com/?d=9ID5UBQB
Blue Galaxy Theme(Flash in Clockwork Recovery) Link: http://www.megaupload.com/?d=PBSOXDEL