Hi,
it depends where and how you include elements,
e.g. when an <plugin> or <hotspot> element is defined inside a <scene> element,
then it should be there and working,
but when defined outside a <scene> element,
then it would need to have keep="true" set to avoid getting removed,
note - in the default vtour templates the first action call is to call loadscene() to load the first scene,
and when loading a new pano/scene all current <plugin> and <hotspot> elements without keep=true will be removed,
so just add:
<plugin ...
keep="true" />
see also:
http://krpano.com/docu/actions/#loadpano
http://krpano.com/docu/xml/#plugin.keep
best regards,
Klaus