I managed to fix it after did some reading.

Basically I followed the steps here:
http://forum.xda-developers.com/showthread.php?t=2488589Then, handwriting recognition still didn't work and followed one of the quotes posted on first post in that thread:
"Originally Posted by esimple View Post
What happen to me is
- if you update langauge
- if you add new langauge
you will get force close when switching from keyboard to pen
What I do is just delete
/data/data/com.visionobjects.resourcemanager
then reboot,,, yeh its fix for me
or use this file which delete this folder for you and replace keyboard form mj2
dl.dropboxusercontent.com/u/10706698/Note_2_4.3_Keyboard_Fix.zip"
Yeah fixed now.

p/s: It is not a Note 3 keyboard but at least it fixed my handwriting recognition issue. I had that earlier when I just flashed to this ROM. Suspected issue was because I updated the language pack.

Lol. I suspected it's the language pack that caused the problem. Most users that experienced keyboard FC was due to the added language pack. Fortunate for me I can't write chinese so no added language needed.