But you don't know the function. Until someone can explain how Glimmer is transformed into the projectile that is fired, or a cross section of said weapon, then you don't truly know the way it functions. Which is why I relate this topic to Austin Powers time travel. It's just a circular argument that will make you crosseyed.
All in all, chances are this is because of cost vs man hrs, designing a large number of weapons. They are probably designed just like the ships, with a base model and attachments added to give each a more unique feel. It's fast and cost effective, but leads to some misalignments.
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You could be correct with that last part. Though the assumption is backed up by deductive reasoning. Also, Occam's Razor.