This is most likely due to the optimizations that akka-sbt-plugin performs to speed up updating. Only a specific repository is searched for each of Akka's dependencies.
To fix this, you are most likely going to need to build a custom akka-sbt-plugin or not use the plugin at all and manually specify the repos.
Yes. Overriding ivyRepositories won't work with the sbt plugin because of the module configurations it uses. I'd go with not using the plugin - the main things it provides are the repositories and the faster module configurations, and you don't need those with a nexus server.
So just add the relevant repositories to your nexus server and specify the akka dependencies normally, like:
val akkaCore = "se.scalablesolutions.akka" %% "akka-core" % "0.9.1"
Or if you want to use the akkaModule method you can copy it from the plugin.
Let us know if it doesn't work out...