This is related to the DDE issue reported in
this thread. It seems that the DDE parameter that indicates whether a browser window should be activated or not is no longer consistently acknowledged by Internet Explorer or Firefox.
The reason /run always works to activate a browser window is that it is directly asking Windows to use the default method to open a browser, and in this case Windows always activates the window. I will change the next version to use /run if the "activate" option is enabled which should solve this particular issue.