OnTopReplica tries to mimic the ALT+TAB behavior of Windows itself, so if you have a window which is shown by ALT+TAB but
visible by OnTopReplica, you found a bug. Please let me know which application you are trying to clone.
If the window is not visible by ALT+TAB as well, using the command line parameters if the way to go. Try using double quotes in the parameters and drop the "-v" which might not be necessary:
OnTopReplica.exe --windowTitle="plug-in title"
Also, you can try using partial title strings ("plug-in", "plug", etc... depends on the actual title - OnTopReplica matches the start of the title if no complete match is possible).
You can also search by "window class" (an internal identifier that Windows uses to identify window types). You'll need to
download the UISpy application
(it's an official development app by Microsoft). You will be able to select the window you want to clone (use the CTRL button) and get its properties, especially the "ClassName" property. Use it
(The command line option above clones any WinRAR window open at the moment.
Hope this helps, let me know. :)