Here are some growing pains I've noticed in
my recent 2Gb SDCard version of Knoppix 6.4.3 Live USB

Also a problem in 6.2.1
Audio values set by alsamixer aren't saved;
easily remedied via /etc/rc.local.

Unique to 6.4.3
Firewall tool applet choices don't recognize persistent store location;
nothing gets saved.

Cube face wallpaper choices get written over on re-boot;
~/.config/compiz/compizconfig may be at fault

Everything mountable gets mounted; potentially hazardous access to ntfs partitions.
cpm says ~/.config/pcmanfm/LXDE/pcmanfm.conf may be at fault.

Gnome log file viewer no longer available;
probably relied on gnome utils which have been removed since 6.2.1.