[{"category":"cat_1","_id":"id1","levels":[{"id":"l1","orders":[{"id":"o1","screens":[{"id":"l1o1s1","name":"screen1"},{"id":"l1o1s2","name":"screen2"}]},{"id":"o2","screens":[{"id":"l1o2s1","name":"screen3"},{"id":"l1o2s2","name":"screen4"}]}]},{"id":"l2","orders":[{"id":"o1","screens":[{"id":"l2o1s1","name":"screen5"},{"id":"l2o1s2","name":"screen6"}]},{"id":"o2","screens":[{"id":"l2o2s1","name":"screen7"},{"id":"l2o2s2","name":"screen8"}]}]}]}]

db.collection.aggregate([{"$match":{"levels.orders.screens.id":{$in:["l1o1s1","l1o2s2","l2o1s1","l2o2s1"]}}},{"$unwind":"$levels"},{"$unwind":"$levels.orders"},{"$unwind":"$levels.orders.screens"},{"$match":{"levels.orders.screens.id":{$in:["l1o1s1","l1o2s2","l2o1s1","l2o2s1"]}}},{"$replaceRoot":{"newRoot":{_id:"$_id","category":"$category","levelId":"$levels.id","orderId":"$levels.orders.id","screens":"$levels.orders.screens"}}},{$group:{_id:{_id:"$_id","levelId":"$levelId","orderId":"$orderId",},"category":{$first:"$category"},"orderId":{$first:"$orderId"},"levelId":{$first:"$levelId"},"screens":{$push:"$screens"}}},{$project:{_id:"$_id._id",levelId:"$levelId",category:"category","orders":{id:"$orderId",screens:"$screens"}}},{$group:{_id:{_id:"$_id","levelId":"$levelId",},"category":{$first:"$category"},"levelId":{$first:"$levelId"},"orders":{$push:"$orders"}}},{$project:{_id:"$_id._id",category:"category","levels":{id:"$levelId",orders:"$orders"}}},{$group:{_id:"$_id","category":{$first:"$category"},"levels":{$push:"$levels"}}},])