We surely don't create multiple instances of the couatl lines. Those names Couatl-1, Couatl-2 looks as if they were either done manually, or by some kind of management utility that must have some very weird way to arranging things it should meddle in to begin with.
The only line added by our installer is this one:
<Launch.Addon>
<Name>Couatl</Name>
<Disabled>False</Disabled>
<Path>C:\Program Files (x86)\Addon Manager\couatl64\couatl64_boot.exe</Path>
</Launch.Addon>
All the others are not added by our installer which, in fact, should be able to automatically remove all the extra, so I wonder why it couldn't. That is, unless the file is in some way corrupted, so our installer won't even touch it.