The answer is in the instructions above.
If SONAR is running the VST Scanner on launch, then it is still configured to do so. If when doing so, SONAR is detecting an "ARX.dll", "ARX (2).dll", or more than one "Fantom VS.dll", then the extra plug-ins are still installed on your system.
The instructions I listed above tell you how to manually delete these files if you have accidentally installed them. If you installed them to a custom location and SONAR is set to scan that custom location, then you will need to remove them from there for the VST Scanner to not pick them up.
If this is the case, and you only have one Fantom VS synthesizer, you absolutely will get these error messages every single time. "Unable to read/write data" means exactly that... it cannot locate the hardware because it is not present, or the settings in the VSTi are not configured correctly.
The errors with the ARX MIDI ports are the same. If you do not have an ARX Expansion card installed, and you have installed the ARX Editor, when SONAR tries to scan this plug-in it cannot locate the hardware and gives you an error message.
See here for more info.
The Fantom VS is supported on the 64-bit version of SONAR. Sweetwater was referring to a previous hotfix that we had available that we did not have an official installer for, but this has been replaced by the updated installer.
The only suggestions I can give are to follow the steps I have listed above. This is the way to resolve this. If this process seems confusing, we have free phone support for registered customers.
Afterwards, perhaps you should configure SONAR's VST Scanner to "Rescan Failed Plug-ins" and "Rescan Existing Plug-ins". Clicking the [Scan VST Folders] button when doing this will repopulate your list of plug-ins so it doesn't reference any plug-in .dlls that are no longer installed on your system.
I know this seems confusing, but I can assure you that this error message is either due to one of two things:
1) There are more Fantom VS and/or ARX editors installed on your computer then you have physical hardware for
2) The settings in the instrument are not configured correctly