It IS by design (as explained by schwa there). And it does make sense. When you glue audio items, some of which are muted, would you expect them to be unmuted in the glued result? Of course you wouldn't - doing such glue operation will result in only audible items being glued, and those that are muted will be silent (as expected). This is just MIDI following the same line of thought.
Also Justin isn't the one doing the MIDI side of the things, for the greater part, it's schwa.
Well thankfully it can be worked around with scripts, so...
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