I don't want to be presumptuous, but I think these changes will go-ahead. Go North East won't operate commercial routes at a loss so I think there would be changes to X3 anyway - "the costs of operating the service (X3) are not covered by the number of passengers using the service." Same with 99.
Be interesting to see if Nexus would be making any changes to 135/136 at the same time but I highly doubt it!
