Yes it's a bit of a nerf. The biggest loss is the 6.7 Starship Operations Training which is worth just over 100 skill points, and that's largely a nerf for sci captains with less of an effect for eng and tac captains. I don't think it's a huge deal though, since the passive bonuses are small even on Holodeck. Hell my main is a joined Trill sci captain and I'm still not particularly bothered by this.