I spoke with the Coleman people, and have ordered a new prewired bell-housing which will allow me to simply replace the oulets I have now with a 4 prong Twistlock 220v and a regular 110v. The whole housing simply connects via a snap-on wiring harness.
Then it sounds like we'll be up to code as far as having a separate ground and neutral.
And as far as I understand this thread, i will not need to connect the generator to a separate ground rod when using it through my transfer switch since the neutral is not switched.