yeah Ive not done alchy yet so I dont know all the different windows that there are and which one you're talking about .. perhaps a screenshot of what it all looks like when you dont use the plugin and a pointer to the one you want docked may help me
On my hunter I haven't done a single thing and that screenshot shows what it puts in the panel for me and looks like it hides it as I can switch to my quest tracker and I dont see the alchy one.
But on my pally I have done one or two digs and the following screenshot is what I see. The one I have docked which I thought was the one you meant and the one that is undocked.