A few more pieces of infos regarding this issue :
- If I use the "xinput -list-props" command before sleep/hibernate and after 
resume, I distinctly see that all the values are reset
- If I use the "xinput -list" command after resume, I see that once in a while, 
the "AlpsPS/2 ALPS DualPoint TouchPad         id=14" disappears and is replaced 
by a "PS/2 ALPS DualPoint TouchPad       id=13"

So far, the only workaround I've found is to cron the command bellow to reapply 
my settings periodically.
xinput --set-prop "AlpsPS/2 ALPS DualPoint TouchPad" [prop] [value]

-- 
Touchpad settings reset suspend/hibernate
https://bugs.launchpad.net/bugs/588973
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