I'm not familiar with this particular setup, but why do you say that "it's telling me all is not well"? Have you tried it and it doesn't work the way you expect?
Many Ethernet switches have two lights. A solid light indicates a successful ethernet link, and another light flashes when there's data. It depends on the switch, but sometimes a 1 gigabit switch will use a green link light when connected at gigabit speeds, and an amber link light for a 100 Mbps link. That might be your case here.
Some pictures/diagrams/additional info would be helpful in troubleshooting this further.
Michael

