Will the ''wipe data/factory reset'' in ClockworkMod also remove my backups I have done?
Wipe data will wipe everything on your /data partition (hence the name). A factory reset will wipe the same (additionally also cache and Dalvik cache), and put your device back to a virgin state. Usually, this doesn't touch the (external) SDCard, and AFAIK should not touch the internal SDCard either.

I don't know on which partition your mentioned folder resides; but if you want to be on the safe side, back up everything to the external SDCard (or even better off-device, e.g. to your computer).