We've seen this problem where DeinoMPI claims that there is a version mis-match when the versions are really the same but we haven't been able to reliably reproduce the errror and debug it.
Is your Credential Store private key password protected? One problem with the scan tool is that it fails if you have to enter a password to access your credential store needed to log in to the remote machines. It also fails if the user name and password stored in the store are not valid on the remote machines.
So:
1) Make sure the user name and password are valid on all the machines.
2) Don't use a password to protect your credential store private key if you plan on using the scan tool.
But even if you don't do anything, can't you still run jobs? You should be able to run jobs even if the scan tool erroneously states there is a version mis-match.