After the counter shaft cluster drops down a bit, there is nothing to hold the input drive gear and main shaft together unless there is a bad bearing in there. With the front bearing and throw out sleeve support removed, the main drive gear should pull out. Sometimes you have to tap on the side of the gear with a soft face hammer while you pull. If that doesn't work, you'll need to rig up a slide hammer with some form of choker or pin puller on the front stub of the main drive gear. I've never had one that wouldn't come apart yet but there is always a first time.