I have this issue too... so to make quick work of it. I use the default reader library software from Sony to delete unused collections.
I personally think most of the metadata tags are overkill in the "collections" label.. lol
I don't need to have 10 sort tags per book.
Nonfiction
Fiction
Young Adult fiction - as my daughter sometimes borrows my Sony..but she wants a Kindle or Nook (gasp)
Autobiography
Sci-Fi
and I add collections (trilogies etc together)
etc..
for Example one book I am reading.. World Without end.
has the follow tags downloaded when I added the metadata:
Fiction, General, Suspense, Historical, England, Historical - General, Romance, Ken - Prose & Criticism, Great Britain - History - 14th century, Black death, Great Britain, Follett, Historical fiction, English, Black Death - England, Fiction - Historical, 14th century, History
Each "Tag" becomes a collection for the Sony Readers! Eeek!
So
1. Clean up your Calibre Tags
2. Remove in bulk your collections via the default sony "Reader Library" program
YMMV
Have fun
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