Here is a Fix if you are running on Jaguar (Mac OS X 10.2.x)
Quit D2OL Agent and the Drug Design Optimization Lab.
Did you quit D2OL completely? Good.
Control click on the SengentD2OL.app and choose Show Package Contents as above.
Open Contents.
Drag the Info.plist onto TextEdit or double-click it if you have the Property List Editor installed (comes with the Dev Tools).
Be careful while editing this file, don't add any spaces or extra characters between keys.
Go to the last key which is NSUIElement.
Change the 1 to 0, if you are using TextEdit you will see it between the <string> tags.
Save.
Quit.
Launch SengentD2OL.
Be glad you have your GUI back.
Bonus points:
Make sure you don't edit this file while the app is running.
While editing the above plist, you can change the CFBundleName and CFBundleGetInfoString to match your client name changes in the launch.xen file, to further remove any confusion when runnign D2OL.
You'll notice they were left as CommunityTSC which is the same app with a different server.
Enjoy!