Updates break redirects

Is it possible in the neat to immediate future to have updates NOT break our redirects that we have in place? The last manual step after every update is to replace the urlrewrite.xml file and the web.xml under the WEB-INF folder to repoint our SSL and DNS names for the users. Unless the update actually DOES something to tomkat, can you make it just leave the "extracted" folder alone?

Or to put it another way, is there a need/purpose to delete and rebuild that folder every update?

It's broken my production machine each time. Maybe add a custom folder that looks for a redirect config or add options to the GUI for SSL enabled and/or customer DNS name. For example, we call our installation ITSS.companyname.com. Being able to NOT worry about that every time would be a fantastic thing.

Thanks