I found an old ticket fitting the description (AP-11062) and attached this topic to it.
Unfortunately, the ticket is still open and it seems we are unsure what exactly removes the blob file temp directory. The path that gets printed is just a concatenation of the program path (path to installation dir) and the relative path of the blob file.
I cannot spot anything interesting in the thread dump, unfortunately. It is also mostly useful to identify issues if something is deadlocked or appears to be stuck. In cases like this, the knime.log or hints to reproduce are more helpful. But I guess this does occur so rarely, that it is hard to reproduce.