Im afraid this is not possible with MyEclipse at the moment. You cannot deploy selective jars while deploying a project. This is an enhancement that we are already considering for a future release.
As a workaround, you could create a new MyEclipse user library with the libraries you dont want to deploy and then add it to your project. You can now go to Project > Properties > MyEclipse > Web > Deployment and uncheck “jars in web projects user libraries.”
Hope that helps.