A workaround until some kind of satisfactory adjustment is made might be to simply use COLON for VISARGA.  Or...

 VISARGA ⇒ U+02F8 MODIFIER LETTER RAISED COLON
ANUSVARA⇒U+02D9 DOT ABOVE

...as long as the font(s) included both those characters.

य॑ यॆ॑

य॑ं -- anusvara last
यॆ॑ं -- "

य॑: -- colon last
यॆ॑: -- "

य॑˸ -- raised colon modifier last
यॆ॑˸ -- "

य॑˙ -- spacing dot above last
यॆ॑˙ -- "

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