Azure Web App restarts due to environment variable changed caused by MsiInstaller

Question

We started to notice that every 6 hours all our Azure App Service web-apps has increased CPU load even though they do not get more requests. Investigating further we noticed that the activity logs of all these web-apps log an:

Operation name: Update website extension

Event initiated by: Azure Application Change Service

Event in the Activity log of the web app. I believe a change in the environment variables causes this to be logged. This activity log correlates with Application Event Logs found via Diagnostic tools:

(blacked out information because I could not figure out of the guids were sensitive information or not, so opted for the safer route)

Where the last warning (event id 1015) has the error code: 0x80070005 which I believe states something has insufficient permissions.

Apparently this issue has been occurring in the application log for over a year, but with increased load (apps running on the same app service plan) the start up load is becoming an issue.

I am kind of stuck in my investigation of what is causing this or how to resolve the issue, any help is more than welcome