I rather like the contrast of green on orange and orange on a green background.
If it was all green on green background or orange on orange there would be no contrast and the colours would need to be less pronounced to avoid being overbearing.
What I like less about the new Amarr station is that it is so dark, and that not only the background is green but the churchlike windows too. If the Amarr station was a little brighter and if more colours were shining through the windows (especially orange/gold) I think it would look better.
I like the light green fog in the background though, the station seems to have a lot more depth and colour than before because of it.
I do agree that the main colours of the factions (primarily green for Gallente, primarily gold for Amarr) is missing now because of these changes.
So while I like the contrasting colours in the lights I would prefer to see the main colours more present in those stations than the contrasting colours. At the moment it seems 50/50 main colour versus contrast and I think a 80/20 would be better to show players the green and gold identity of the factions.