Nico, a quick test and it works I opened a page in local webserver (otherwise I am having trouble in general with JSmol from local disk) A Java dialog asked to trust you, I accepted for ever. Then it asked --a different dialog, from the browser maybe or the browser plugin-- if I wanted to allow the applet to executed. I accepted. Page reload did not request any more permissions. I still have to check after closing the browser or system restart --but I won't do that now.
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