Ext4 partition clockworkmod recovery backup
Most secure way:


Backup all apps with their data with TitaniumBackup. Backup all data from sdcard.
Delete some apps to free space on device's memory.
Check if all transfer-checkboxes in s2e are available now. If not - free up some more space.
Transfer ALL apps, data etc back to device's memory in s2e.
Format sdcard again with setting sd-ext partition size bigger or equal than current.
Restore all data to sdcard.
Reconfigure s2e WITHOUT ticking "mount as ext4" option!
Restore all apps in TitaniumBackup.


Please, be very careful. I'm not responding for any damage or data loss.

Please, correct me if something missed or excess here.