Me again. What I wrote before was partially true: I logged in-out and the left 
mouse button worked and I assumed it would work after rebooting (as earlier 
attempts wouln't work even with log in/out).
Since then , I have restarted the computer and the behaviour is the same - 
Lubuntu wouldn't recognize the mouse button change. 

I do apologize for this, as I was really excited about it - I spent
quite a time trying to figure out this show-stopper...

This is what I did:
I created a folder named lxde (and lxde_, just in case) in the .config folder 
under ~. Then, when I first changed the mouse settings, lxinput created a 
config file whose content looks like this:

[Mouse]
AccFactor=20
AccThreshold=30
LeftHanded=1

[Keyboard]
Delay=500
Interval=30
Beep=1

But seems to me that initially, Lubuntu isn't reading this file. Only
when run lxinput again, the mouse becomes left-handed.

Other strange thing is that some applications, randomly, when they are
first opened, behave like right-handed. Meaning, the mouse buttons seems
to be swapped for that application only. Clicking aside (anywhere) and
back to the application would bring the left-handed mouse behaviour back
to that app.

Finally, for the record, I would like to mention that I do not run clean 
Lubuntu install - I initially installed Xubuntu 10.4, and seeing that my old 
computer is too slow, via Synaptic I fetched Lubuntu. 
Then I removed everything xfce-connected, and reinstalled Lubuntu-desktop in 
synaptic.

-- 
won't save config if missing lxde folder
https://bugs.launchpad.net/bugs/563530
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