Having errors while installing a custom PDF IFilter, I investigated and traced the problem to a simpler one, the following:
Running the following powershell command fails on Sharepoint SE:
Set-SPEnterpriseSearchFileFormatState -SearchApplication $ ssa -Identity XPS -Enable $ FALSE
I get the following error:

Set-SPEnterpriseSearchFileFormatState : The processing of files of type 'xps' is already supported by the parsing system.

With VisualStudio I found that:

I believe the problem is related to the contents of the Default-manifest.txt file which on Sharepoint 2019, where everything works correctly, contains the following text:

...
E:\SharePoint\Office Server\Applications\Search\Repository\Journal\33fdd438-c057-4391-b20a-57f203c05d88\Microsoft.DocParsing.dll
Microsoft.DocParsing, Version=16.0.0.1, Culture=neutral, PublicKeyToken=0fbbedb750799a68
...

While on Sharepoint SE it contains:

E:\SharePointData\Index\Office Server\Applications\Search\Repository\Journal\e9ac9b13-f7e2-48c3-99b1-9fc8c8a8dcc4\Microsoft.DocParsing.dll
Microsoft.DocParsing, Version=0.0.0.0, Culture=neutral, PublicKeyToken=0fbbedb750799a68
E:\SharePointData\Index\Office Server\Applications\Search\Repository\Journal\ec0d23eb-7e8b-4d88-a2a3-e83c8cad9678\Microsoft.UserDictionaries.EntityExtraction.Companies.Inclusions.dll
Microsoft.UserDictionaries.EntityExtraction.Companies.Inclusions, Version=15.0.8082.15928, Culture=neutral, PublicKeyToken=0fbbedb750799a68

...

The versions shown seem to me to be incorrect.

I would like guidance on how to fix this.
If the solution to the problem is not simple, I would like to have some information that could allow me to continue with my investigations such as:

1) How can I regenerate it;
2) Which executable / dll creates this file;
3) At what moment it is created;
4) How and where the information that is inserted in the file is retrieved;

5) How can I officially report this issue to Microsoft. I done a report to Microsoft support but they tell me they support "Out of the box" product only.

I have already submitted the question to the community but to date we have not found any solution, indeed it seems that it is not always reproduced.

Re: Set-SPEnterpriseSearchFileFormatState disabling built-in IFilter issue on Sharepoint SE - Microsoft Tech Community

On the internet I saw that this problem has also manifested itself in the past with Sharepoint 2013.

Thanks in advance