Situation
There is an installer for desktop application. When it runs, it unpacks some executalbe files, executes them, writes to registry, etc. Every executable file and installer itself is written by out team, is not aimed to do any harm to user and is signed with valid security certificate. Anyway, one of executables is recognized as MSIL.downloader by Malwarebytes AntiMalware tool.
Question
How can we get rid of this behavior?
Details
For those who encounter same problem:
The solution was to post support request to http://helpdesk.malwarebytes.org with description of situation and follow their instructions.