Hi,
please DON’T edit the content.xml file. Our installer places the navdata packages always in the correct location and will disable the default stock navdata.
It is very, very important that you use only installer for an AIRAC update (or removing) and no manual editing to avoid strange behaviors. You´re solution is unsupported and we can´t guarantee that all is working as expected with the navdata update.
I would HIGHLY recommend to follow these steps:
When you have done it, exactly in this way, the installation is correct and you can expect a correct working update. Also, be sure that you have the latest FSDT KORD package installed which fixed the missing runway.
There was a old posting with exact your issue - do the steps above and you´re fine please.