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Answer for the clue "Heartless darkness I tempt to return, finding blood filters ", 9 letters:
glomeruli

Word definitions for glomeruli in dictionaries

WordNet Word definitions in WordNet
n. a small intertwined group of capillaries in the malpighian body; glomeruli filter blood during urine formation [also: glomeruli (pl)]

The Collaborative International Dictionary Word definitions in The Collaborative International Dictionary
Glomerulus \Glo*mer"u*lus\, n.; pl. Glomeruli . [NL., dim. of L. glomus. See 3d Glome .] (Anat.) The bunch of looped capillary blood vessels in a Malpighian capsule of the kidney.

Wiktionary Word definitions in Wiktionary
n. 1 (en-irregular plural of: glomerulus) 2 That which is affected by glomerular nephropathies

Usage examples of glomeruli.

So your system made antibodies against your own glomeruli, and systematically took them out.