So finally I was ready to create a new character to actually play and not play "asd" the Imperial test character, when I notcied that I was not able to chose hair type of eye type.
It's not due to Mannimarco Revisited as I have the fixed version.

Other mods I have that add new races are:
Damarask - never had problems with it before
Elseweyr Anequina
Return of Shadows
Moriarcis - never had problems with it before
StarX Vanilla Vampires Revisited
ZUZIO
The Other Spheres
Adash - City of Magic

Any ideas?

Have you tried to alter the eyes and hair when you leave the sewers? Sometimes it does not work at the creation of an new char.
Another option would be to use the racemenu opened via the console with "showracemenu", if anything else fails.

Tried the showracemenu trick, but no dice.
I'm using an alternate start mod, so instant chargen.
I was able to make a character after disabling all the mods mentioned above, though.

What could help to find out where the problem comes from would be to enable one of the mods and than try again, and so on.

The last two I disabled was Anequina and ZUZIO and only Moriarcis still active. I suspect ZUZIO may be the culprit since it's the newest mod and also the one that makes the most changes.