Chris Elford:
In the right click menu, only one clippings and note file are shown - the most recently opened. So, if you want to add a clipping to a specific clipping file, you need to first open that clipping file, then do the right click.
Several of us (http://community.logos.com/forums/p/4391/34397.aspx#34397) have asked for this to be changed, so (for example) we have a pulldown menu of potential files or some other way to navigate around. I'm not aware of a definite response from Logos, but others may have heard.
I'm dissapointed that this was not done in L5. Would really like to see it added.