Thanks Dominik for your comment.

I don't know if it has something to do with timing issues, but before
the update to Debian Stretch (which ships the same xdotool as Ubuntu
18.04, in comment #3 I wrongly cited "Jessie", I was talking about
"Stretch" ), I was not having these problems.

Changing my shortcut (CTRL-ALT-A) to '/usr/bin/setxkbmap fr oss; mono 
/usr/lib/keepass2/KeePass.exe --auto-type' seemed to do the trick for 'Perform 
auto-type' (CTRL-V) but was not working for my global auto-type CTRL-ALT-A (it 
seemed not to do anything). Perhaps because I don't know how t correctly 
specify a keyboard shortcut with more than 1 command in Gnome shell.
As a workaround, I made a shell script with these 2 commands (setxkbmap and 
mono) and now I call this script with CTRL-ALT-A. 'Perform auto-type' (CTRL-V) 
as well as Global auto-type (CTRL-ALT-A) now seem to work flawlessly (at least 
it has been the case for several days now).
So I really suspect the problem has something to do with the management of 
keyboards when more than 1 is set in Gnome.

@Dominik : do you have more than 1 keyboard layout set as input ?

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https://bugs.launchpad.net/bugs/1783873

Title:
  auto-type user and password not working (too fast?)

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