I do not know if this is relevant or not to your posts. On one of the themes on a v1.3.x test site, I have a JAVA applet at the bottom of the page. I have changed the site theme to the theme I am referring to to demonstrate what I mean. I will leave it like that for a while so you have time to see it. It is a JAVA applet about "Missing Children". So, a JAVA applet can run in Moodle. This one is actually romotely run. From my limited JAVA knowledge, you appear to be running yours on a local machine. Is that correct?
The link to the site is,
Teaching with Moodle
(re)using java-applets within Moodle
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