Feature request from seansan, posted on GitHub Mar 17, 2015
Change the setting Add Store Code to Urls from global setting to Store Name setting
Currrently the setting Add Store Code to Urls is a global setting. This should be changed to one level down: Store Name level.
One should be able to run 2 brands like this
Brand A
Add Store Code to Urls = YES
nl site = brandA.com/nl
en site = brandA.com/en
Brand B
Add Store Code to Urls = NO
And different Base URL's
nl site = brandB.nl
en site = brandB.co.uk
Curerntly when Add Store Code to Urls = YES the /en, /de, /fr, /nl are added to all stores in a multistore setting. In this example brand A follows this model, but Brand B does not and has unique domains
Please change Add Store Code to Urls to Store Name level (instead of global setting).
Some more explanation here: http://magento.stackexchange.com/questions/60686/multi-multistore-multiple-brands-multiple-languages...