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Chocolate cysts and endometriosis
are same, but polycystic ovaries
and endometriosis are two different things.
They may co-exist.
In endometriosis, during menstruation
, blood collects in the ovary / ovaries also, and gives rise to swellings filled with blood, called chocolate cysts, because of their colour. This may cause severe pain during menses.
On the other hand polycystic ovaries are multiple immature follicles in the ovaries, and these result in irregular periods
, obesity and excess hair growth in unwanted places.
Both these conditions make it difficult to conceive, but are treatable.