Pane customizations are stored in the registry under the key HKEY_CURRENT_USER\Software\Kinook Software\Ultra Recall\Options\DockingPaneLayouts. To reset all pane customizations to their defaults, exit UR, download [1] below and run ResetPanes.reg by double-clicking (accepting all prompts).
Window positioning, toolbar, menu, and keyboard customizations are stored in the registry under the key HKEY_CURRENT_USER\Software\Kinook Software\Ultra Recall\Layouts. To reset these customizations to their defaults, exit UR, download [1] below and run ResetLayouts.reg by double-clicking.
To reset all UR user customizations and options to their default values, run ResetAll.reg in the ZIP file below by double-clicking.
[1]
http://www.kinook.com/Download/ResetUR.zip