I tried the new eSchemes 1.48. Install seemed to go smoothly (this was a fresh install). After booting everything seemed normal - no missing window buttons: nice! Looking in the scheme palette the preview window showed the scheme nicely too.
I tried double clicking the eComStation scheme to bring up the editor - nothing happened. I double clicked again, and again then I finally noticed in the task bar (which is normally hidden) there was an 'eschemes editor' running. I clicked on that and an empty window outline appeared. Click on it again and now the window shows 2 tabs: 'Sounds' and 'Objects'. 'Sounds' is empty and 'Objects' is full of desktop objects. It seems like something is wrong with this.
I downloaded the 'eschemes-test' script from your website. When I ran it it showed one error: Test 3 - PROBLEM FOUND: Wrong estlrl11.dll (sub-test 2). I'm not sure what to do about this - could it be the source of this problem? I thought the install added a new estlrl11.dll.
I'm running eCS 2.0RC5 with ACPI 3.11. I also have XWP 1.08, Object Desktop 2.0, and WPSWizard 0.6.3 installed. Also using the 20080805 eCoRT.