I'm not so sure. I think this alteration is not a "change," per se, but rather an update. "Bauglir" is a Gnomish name; there is no Sindarin ending "-lir." "Baugron," however, matches then Sindarin masculine ending seen in Sauron and Daeron, from older "-ondo."
I think the Bauglir < Baugron note came from a time where the Professor was updating old names to match the new styles, but he later forgot it and wrote the form he was used to writing. In fact, isn't the Valaquenta the same document which saw the change Tavros < Tauron, which is a change of the same form?
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