At least I found a possible source of this problem (not only for sdl
apps), see https://bugs.launchpad.net/bugs/138424

I have to reset one Compiz plugin to make things work again.

in short,  this is what I observe (copy from 138424 ...)


The strange behavior for apps. launched on fullscreen (Nautilus or other 
applications) was caused(on my machine) by a Compiz plugin named PLACE WINDOWS 
under WINDOWS MANAGEMENT SECTION.

This plugin has 4 possible states = 4 possible ways to put a window on
desktop when this window is generated.

1 Centered
2 Smart
3 Maximize
4 Random

The subject of this bug report is this RANDOM mode.
When RANDOM mode is activated - this plugin try to calculate a random X and Y 
start points for the new generated window.
This is in oposition with the case when a window try to start in fullscreen 
mode and X,Y = 0.

Changing this mode to CENTERED mode solve my problem.

-- 
compiz causes crash with fullscreen sdl applications (gutsy)
https://bugs.launchpad.net/bugs/130110
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