Jason,
Unfortunately we don’t provide IDE-specific migration guides, although if you are comming from WSAD your experience should be somewhat farmiliar which will make the transition easier.
The one tip that I will give you (besides reading our docs here: http://www.myeclipseide.com/ContentExpress-display-ceid-67.html) that helps people wrap their minds around the projects faster is that in MyEclipse each web module needs to be modelled as a Web Project, each common library module needs to be a Java Project and your EJBs (either all in 1 project or spread across multiple, up to you) need to be modelled in EJB Projects. After that is done, you can create an Enterprise Project that lists all the individual projects as modules, it will then package and deploy those projects for you.
Also moving forward, possibly starting with MyEclipse 5.0, we will be adopting the WTP project model as well to stay consistent with all Eclipse-based web tooling products, so if your team is farmiliar with that model, it should transition over without a problem.