@Michael Novak Thanks for posting in our Q&A.
For FileVault settings in different locations, they are the same configuartion.
For this issue, I have done a lot of research. This is may caused by the device has already enable FileVault before enrolling to Intune receive FileVault policy. Did you enable FileVault before? If not, it is needed to do log analysis to find the root cause.
With Q&A limitation, Q&A is not the best channel for such log analysis case. So we suggest to open a case to check on this. It is free. The following link describes how to open a case, we can refer to it:
https://learn.microsoft.com/en-us/mem/intune/fundamentals/get-support
Hope this issue will be solved as soon as possible.
Note: Please follow the steps in our documentation to enable e-mail notifications if you want to receive the related email notification for this thread.