Database

[{"_id":ObjectId("611bb4d2ee06769a5f6d906d"),"name":"test","issues":[{"_id":ObjectId("611bb4d20b2fb200167aa588"),"status":"open","hash":"8ff28fcc9cbf10c9b690bb331e5609efbd3c526be4f536ebca02cc51bd63eac7"},{"_id":ObjectId("611bb4d20b2fb200167aa589"),"status":"open","hash":"3b83e469049e46b16d3471a188d3f5e3ddbf6b296995a71765bbf17b7289e6ea"},{"_id":ObjectId("611bb4d20b2fb200167aa58a"),"status":"open","hash":"bef5f50628b669b9930b89cdc040361b9c8cc2b4aab3c2059c171786d38d507e"},{"_id":ObjectId("611bb4d20b2fb200167aa58b"),"status":"open","hash":"1b4a91eb5de97d6ad7493b6e1ffa48a2a648084b4af7b37916c723533a07c37c"},{"_id":ObjectId("611bb4d20b2fb200167aa58c"),"status":"open","hash":"bb64ba7b2612856dcd95c3ac2fad3f7368e5d463168545b12f4c869af56b55b7"},{"_id":ObjectId("611bb4d20b2fb200167aa58d"),"status":"open","hash":"1d5fc04739b10414dea8d327998df4f200f47ce57da243bd578d4ae102f2d670"},{"_id":ObjectId("611bb4d20b2fb200167aa58e"),"status":"open","hash":"d5368ad5658ec11103796255d127d26da7f3324cdedbd124bdd5db50812d588e"},{"_id":ObjectId("611bb4d20b2fb200167aa58f"),"status":"open","hash":"37298229097785ebc9d419cc1a3f13e0d090a15ceb9a8e6bea3505366902556d"},{"_id":ObjectId("611bb4d20b2fb200167aa590"),"status":"open","hash":"fad290f2ddd0e097e4098c3b2c3d65611406cf208a3f86924d45c7736393b44b"}]}]

Query

db.collection.update({"name":"test"},{"$set":{"issues.$[element].status":"closed"}},{"arrayFilters":[{"element.hash":{"$nin":["8ff28fcc9cbf10c9b690bb331e5609efbd3c526be4f536ebca02cc51bd63eac7","d5368ad5658ec11103796255d127d26da7f3324cdedbd124bdd5db50812d588e","37298229097785ebc9d419cc1a3f13e0d090a15ceb9a8e6bea3505366902556d","fad290f2ddd0e097e4098c3b2c3d65611406cf208a3f86924d45c7736393b44b"]}}]})

Result