I had the same issue and came across the following post.
https://askubuntu.com/questions/752324/fcitx-extra-key-for-trigger-
input-method-changes-back-to-default-after-restart
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Status changed to 'Confirmed' because the bug affects multiple users.
** Changed in: fcitx (Ubuntu)
Status: New => Confirmed
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https://bugs.launchpad.net/bugs/1590212
Title:
A workaround solution is to modify ~/.config/fcitx/config manually.
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https://bugs.launchpad.net/bugs/1590212
Title:
fcitx does not save global configuration across sessions
To manage
It affects me too. Suffered for a long time.
I am on Ubuntu 15.04
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https://bugs.launchpad.net/bugs/1590212
Title:
fcitx does not save global configuration across sessions
To manage