I cant use chmod on TegraOTA.apk -read only file system.Used su in terminal emulator(root@tegranote:/).
no problems. I hope you just chmoded the file TegraOTA.apk in the /system/app folder (I think it was there)
If not the best way to disable OTA's is using the following command as SU
chmod 000 /system/app/TegraOTA.apk then reboot the tablet.
This will then keep the file there but make it so that it can't be read wrote to or even execute. Then if you want to OTA again you just change it back to chmod 644 /system/app/TegraOTA.apk and reboot again.