Well, you said you are rooted and run CTMod3.68 with Koumakernel in DATA mode !! This means, your SD-Card is partitioned. You have a FAT32 partition and a sd-ext ( which is used to install your apps and acts like internal memory ! ) You can specify the size of the sd-ext in CWM when you partition the card. Then you need to format the sd-ext.....boot up, check the settings in the CTMod>>>Koumasettings, that it is set to DATA ( and the checkmark), then you NEED to reboot into Recovery and re-format the sd-ext and reboot !! this way, your card is setup for the Kouma settings ! then you shut down the phone, take the card out and put it in your computer to copy the things you had on your old card to the new one !
And the steps are pretty straight forward, except, I'd boot up fully after Step 4 , then shut down the phone and copy the stuff from your old card to the new one !!