Chris,
Our server connectors allow you to configure the startup of WLS just as you have it configured to run from the commandline. Enabling https on WLS, or any server, requires special configuration. For WLS 8, that is documented at the BEA site here: http://edocs.bea.com/wls/docs81/secmanage/ssl.html. By default this support is disabled.
Once you have reconfigured WLS to start from the commandline with https enabled, and have verified that you can use your application through it, you can then make the same types of modifications to the WLS connector in MyEclipse to enable the startup to be the same as the ssl-aware commandline version.