I've seen this before, but I thought the little white boxes
were related to some link controls, and so I removed thecontrols
and the boxes went away. This time, it's been caused by apparently
too many links (internal to the topic itself) that I've used to
present a series of alphabetical links within the topic.
There's nothing in the True Code but the little boxes, so
there's no help there. Any clues?
Although I've never personally experienced this, I believe
fellow Adobe Community Expert Peter Grainge has. If I recall
correctly, Peter discovered that sometimes TrueCode may actually
fib to us a bit. (gasp)
Have you tried examining the odd topic(s) using something
like good old simple Windows Notepad? Perhaps it will offer some
clues as to what may be amiss.