Modified SAP SWCV and CR Content Upgrade

Hello Experts,
I am reviewing an existing XI installation and found that the developers added interfaces and other design objects to standard SAP SWCVs like BW and R/3 instead of creating a project SWCV to put their objects in.
The question is, if we update the CR Content in the SLD would these developments residing in the SAP SWCVs be affected? and what would be the consequences to them?
Thanks in advance for your answers.
-Sam.

At least he must have created the name spaces as per my assumption. If that is the case, it should not hurt updating. But if he has used the namespaces also as it is.. you might want to do a trial run on a sand box..!!
VJ

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