Hi Geert, I experimented a little more with RC4 in Linux, and all setting were correctly restored with my previous modifications.
As you can see in the screenshot, I have added all tool bars, changed settings in global preferences, and also I have added more Favorites in Process Explorer and have changed the default raw settings.
I did the modifications in three instances of RC4 and they remain there after restart the computer
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The fourth instance has the defalut values as I did not do any modification in there.
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I really do not know if it could be something related to windows.
Now, it is important to know if you work with several instances of the same version or differents versions that PI will remember the confirguration by instance, not by version.
Example, if I open PI RC4 (1) and then open PI RC3 (2), both version will have my special configuration, because I have defined three instances with that configuration. However, if I open PI RC4 (1), PI RC4 (2), PI RC4 (3) and then open PI RC3 (4), the last opend instances will show the default values an not my configurations.
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Saludos. Alejandro.